http://192.168.164.12:81/ricewiki/api.php?action=feedcontributions&feedformat=atom&user=Liangsara 2026-05-26T12:32:55Z User contributions MediaWiki 1.30.0 https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=169122 2014-05-16T07:27:33Z

<p>Liangsara: /* Evolution */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> The histone deacetylase gene OsHDT1 is associated with enhanced utilization of heterosis in rice [2].<br /> <br /> ===Expression===<br /> <br /> Rice OsHDT belongs to the plant specific class of HDAC, the expression of which displays a circadian rhythm.<br /> <br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> Over-expression of OsHDAC1 (HDA702) led to increased growth rate and altered architecture in transgenic rice[3].<br /> <br /> OsHDAC1 could epigenetically repress the OsNAC6 gene that controls rice seedling root growth[4].<br /> <br /> OsHDAC1 binds to the OsNAC6 promoter and deacetylates histones H3 and H4. Down-regulation of a Sir2-type HDAC gene, SRT701 (OsSRT1), induced H2O2 production, DNA fragmentation, cell death and lesions mimicking plant hypersensitive responses induced by pathogen attacks, whereas over-expression of the gene enhanced the tolerance to oxidative stress[5].<br /> <br /> ===Evolution===<br /> During the long history of rice evolution, adaptation, selection and domestication, closely related rice species, subspecies and varieties may have developed significant epigenetic variation contributing to variation in adaptation and agronomic traits, which remains to be exploited in a perspective to identify agronomically interesting epialleles.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789.<br /> [2] Zhou Daoxiu, Li Chen, Huang Limin, Use of a Histone Deacetylase Gene OsHDT1 in Enhancing Rice Heterosis. GEN, 2010.<br /> [3] Jang et al., 2003 I.C. Jang, Y.M. Pahk, S.I. Song, H.J. Kwon, B.H. Nahm, J.K. Kim<br /> Structure and expression of the rice class-I type histone deacetylase genes OsHDAC1-3: OsHDAC1 overexpression in transgenic plants leads to increased growth rate and altered architecture.Plant J., 33 (2003), pp. 531–541.<br /> [4]Chung et al., 2009 P.J. Chung, Y.S. Kim, J.S. Jeong, S.H. Park, B.H. Nahm, J.K. Kim<br /> The histone deacetylase OsHDAC1 epigenetically regulates the OsNAC6 gene that controls seedling root growth in rice<br /> Plant J., 59 (2009), pp. 764–776.<br /> [5]Huang et al., 2007 L. Huang, Q. Sun, F. Qin, C. Li, Y. Zhao, D.X. Zhou Down-regulation of a SILENT INFORMATION REGULATOR2-related histone deacetylase gene,OsSRT1, induces DNA fragmentation and cell death in rice.Plant Physiol., 144 (2007), pp. 1508–1519.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=169113 2014-05-16T06:47:55Z

<p>Liangsara: /* Expression */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> The histone deacetylase gene OsHDT1 is associated with enhanced utilization of heterosis in rice [2].<br /> <br /> ===Expression===<br /> <br /> Rice OsHDT belongs to the plant specific class of HDAC, the expression of which displays a circadian rhythm.<br /> <br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> Over-expression of OsHDAC1 (HDA702) led to increased growth rate and altered architecture in transgenic rice[3].<br /> <br /> OsHDAC1 could epigenetically repress the OsNAC6 gene that controls rice seedling root growth[4].<br /> <br /> OsHDAC1 binds to the OsNAC6 promoter and deacetylates histones H3 and H4. Down-regulation of a Sir2-type HDAC gene, SRT701 (OsSRT1), induced H2O2 production, DNA fragmentation, cell death and lesions mimicking plant hypersensitive responses induced by pathogen attacks, whereas over-expression of the gene enhanced the tolerance to oxidative stress[5].<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789.<br /> [2] Zhou Daoxiu, Li Chen, Huang Limin, Use of a Histone Deacetylase Gene OsHDT1 in Enhancing Rice Heterosis. GEN, 2010.<br /> [3] Jang et al., 2003 I.C. Jang, Y.M. Pahk, S.I. Song, H.J. Kwon, B.H. Nahm, J.K. Kim<br /> Structure and expression of the rice class-I type histone deacetylase genes OsHDAC1-3: OsHDAC1 overexpression in transgenic plants leads to increased growth rate and altered architecture.Plant J., 33 (2003), pp. 531–541.<br /> [4]Chung et al., 2009 P.J. Chung, Y.S. Kim, J.S. Jeong, S.H. Park, B.H. Nahm, J.K. Kim<br /> The histone deacetylase OsHDAC1 epigenetically regulates the OsNAC6 gene that controls seedling root growth in rice<br /> Plant J., 59 (2009), pp. 764–776.<br /> [5]Huang et al., 2007 L. Huang, Q. Sun, F. Qin, C. Li, Y. Zhao, D.X. Zhou Down-regulation of a SILENT INFORMATION REGULATOR2-related histone deacetylase gene,OsSRT1, induces DNA fragmentation and cell death in rice.Plant Physiol., 144 (2007), pp. 1508–1519.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=169112 2014-05-16T06:46:13Z

<p>Liangsara: /* References */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> The histone deacetylase gene OsHDT1 is associated with enhanced utilization of heterosis in rice [2].<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> Over-expression of OsHDAC1 (HDA702) led to increased growth rate and altered architecture in transgenic rice[3].<br /> <br /> OsHDAC1 could epigenetically repress the OsNAC6 gene that controls rice seedling root growth[4].<br /> <br /> OsHDAC1 binds to the OsNAC6 promoter and deacetylates histones H3 and H4. Down-regulation of a Sir2-type HDAC gene, SRT701 (OsSRT1), induced H2O2 production, DNA fragmentation, cell death and lesions mimicking plant hypersensitive responses induced by pathogen attacks, whereas over-expression of the gene enhanced the tolerance to oxidative stress[5].<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789.<br /> [2] Zhou Daoxiu, Li Chen, Huang Limin, Use of a Histone Deacetylase Gene OsHDT1 in Enhancing Rice Heterosis. GEN, 2010.<br /> [3] Jang et al., 2003 I.C. Jang, Y.M. Pahk, S.I. Song, H.J. Kwon, B.H. Nahm, J.K. Kim<br /> Structure and expression of the rice class-I type histone deacetylase genes OsHDAC1-3: OsHDAC1 overexpression in transgenic plants leads to increased growth rate and altered architecture.Plant J., 33 (2003), pp. 531–541.<br /> [4]Chung et al., 2009 P.J. Chung, Y.S. Kim, J.S. Jeong, S.H. Park, B.H. Nahm, J.K. Kim<br /> The histone deacetylase OsHDAC1 epigenetically regulates the OsNAC6 gene that controls seedling root growth in rice<br /> Plant J., 59 (2009), pp. 764–776.<br /> [5]Huang et al., 2007 L. Huang, Q. Sun, F. Qin, C. Li, Y. Zhao, D.X. Zhou Down-regulation of a SILENT INFORMATION REGULATOR2-related histone deacetylase gene,OsSRT1, induces DNA fragmentation and cell death in rice.Plant Physiol., 144 (2007), pp. 1508–1519.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=169111 2014-05-16T06:44:53Z

<p>Liangsara: /* Expression */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> The histone deacetylase gene OsHDT1 is associated with enhanced utilization of heterosis in rice [2].<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> Over-expression of OsHDAC1 (HDA702) led to increased growth rate and altered architecture in transgenic rice[3].<br /> <br /> OsHDAC1 could epigenetically repress the OsNAC6 gene that controls rice seedling root growth[4].<br /> <br /> OsHDAC1 binds to the OsNAC6 promoter and deacetylates histones H3 and H4. Down-regulation of a Sir2-type HDAC gene, SRT701 (OsSRT1), induced H2O2 production, DNA fragmentation, cell death and lesions mimicking plant hypersensitive responses induced by pathogen attacks, whereas over-expression of the gene enhanced the tolerance to oxidative stress[5].<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789.<br /> [2] Zhou Daoxiu, Li Chen, Huang Limin, Use of a Histone Deacetylase Gene OsHDT1 in Enhancing Rice Heterosis. GEN, 2010.<br /> [3] Jang et al., 2003 I.C. Jang, Y.M. Pahk, S.I. Song, H.J. Kwon, B.H. Nahm, J.K. Kim<br /> Structure and expression of the rice class-I type histone deacetylase genes OsHDAC1-3: OsHDAC1 overexpression in transgenic plants leads to increased growth rate and altered architecture.Plant J., 33 (2003), pp. 531–541.<br /> [4]Chung et al., 2009 P.J. Chung, Y.S. Kim, J.S. Jeong, S.H. Park, B.H. Nahm, J.K. Kim<br /> The histone deacetylase OsHDAC1 epigenetically regulates the OsNAC6 gene that controls seedling root growth in rice<br /> Plant J., 59 (2009), pp. 764–776.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=169110 2014-05-16T06:43:22Z

<p>Liangsara: /* References */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> The histone deacetylase gene OsHDT1 is associated with enhanced utilization of heterosis in rice [2].<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> Over-expression of OsHDAC1 (HDA702) led to increased growth rate and altered architecture in transgenic rice[3].<br /> <br /> OsHDAC1 could epigenetically repress the OsNAC6 gene that controls rice seedling root growth[4].<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789.<br /> [2] Zhou Daoxiu, Li Chen, Huang Limin, Use of a Histone Deacetylase Gene OsHDT1 in Enhancing Rice Heterosis. GEN, 2010.<br /> [3] Jang et al., 2003 I.C. Jang, Y.M. Pahk, S.I. Song, H.J. Kwon, B.H. Nahm, J.K. Kim<br /> Structure and expression of the rice class-I type histone deacetylase genes OsHDAC1-3: OsHDAC1 overexpression in transgenic plants leads to increased growth rate and altered architecture.Plant J., 33 (2003), pp. 531–541.<br /> [4]Chung et al., 2009 P.J. Chung, Y.S. Kim, J.S. Jeong, S.H. Park, B.H. Nahm, J.K. Kim<br /> The histone deacetylase OsHDAC1 epigenetically regulates the OsNAC6 gene that controls seedling root growth in rice<br /> Plant J., 59 (2009), pp. 764–776.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=169109 2014-05-16T06:42:20Z

<p>Liangsara: /* Expression */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> The histone deacetylase gene OsHDT1 is associated with enhanced utilization of heterosis in rice [2].<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> Over-expression of OsHDAC1 (HDA702) led to increased growth rate and altered architecture in transgenic rice[3].<br /> <br /> OsHDAC1 could epigenetically repress the OsNAC6 gene that controls rice seedling root growth[4].<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789.<br /> [2] Zhou Daoxiu, Li Chen, Huang Limin, Use of a Histone Deacetylase Gene OsHDT1 in Enhancing Rice Heterosis. GEN, 2010.<br /> [3] Jang et al., 2003 I.C. Jang, Y.M. Pahk, S.I. Song, H.J. Kwon, B.H. Nahm, J.K. Kim<br /> Structure and expression of the rice class-I type histone deacetylase genes OsHDAC1-3: OsHDAC1 overexpression in transgenic plants leads to increased growth rate and altered architecture.Plant J., 33 (2003), pp. 531–541.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=169108 2014-05-16T06:41:27Z

<p>Liangsara: /* References */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> The histone deacetylase gene OsHDT1 is associated with enhanced utilization of heterosis in rice [2].<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> Over-expression of OsHDAC1 (HDA702) led to increased growth rate and altered architecture in transgenic rice[3].<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789.<br /> [2] Zhou Daoxiu, Li Chen, Huang Limin, Use of a Histone Deacetylase Gene OsHDT1 in Enhancing Rice Heterosis. GEN, 2010.<br /> [3] Jang et al., 2003 I.C. Jang, Y.M. Pahk, S.I. Song, H.J. Kwon, B.H. Nahm, J.K. Kim<br /> Structure and expression of the rice class-I type histone deacetylase genes OsHDAC1-3: OsHDAC1 overexpression in transgenic plants leads to increased growth rate and altered architecture.Plant J., 33 (2003), pp. 531–541.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=169107 2014-05-16T06:40:18Z

<p>Liangsara: /* Expression */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> The histone deacetylase gene OsHDT1 is associated with enhanced utilization of heterosis in rice [2].<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> Over-expression of OsHDAC1 (HDA702) led to increased growth rate and altered architecture in transgenic rice[3].<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789.<br /> [2] Zhou Daoxiu, Li Chen, Huang Limin, Use of a Histone Deacetylase Gene OsHDT1 in Enhancing Rice Heterosis. GEN, 2010.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=169106 2014-05-16T06:36:43Z

<p>Liangsara: /* Function */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> The histone deacetylase gene OsHDT1 is associated with enhanced utilization of heterosis in rice [2].<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789.<br /> [2] Zhou Daoxiu, Li Chen, Huang Limin, Use of a Histone Deacetylase Gene OsHDT1 in Enhancing Rice Heterosis. GEN, 2010.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=169105 2014-05-16T06:36:29Z

<p>Liangsara: /* Expression */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789.<br /> [2] Zhou Daoxiu, Li Chen, Huang Limin, Use of a Histone Deacetylase Gene OsHDT1 in Enhancing Rice Heterosis. GEN, 2010.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=169104 2014-05-16T06:36:00Z

<p>Liangsara: /* References */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> The histone deacetylase gene OsHDT1 is associated with enhanced utilization of heterosis in rice [2].<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789.<br /> [2] Zhou Daoxiu, Li Chen, Huang Limin, Use of a Histone Deacetylase Gene OsHDT1 in Enhancing Rice Heterosis. GEN, 2010.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=169103 2014-05-16T06:35:41Z

<p>Liangsara: /* References */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> The histone deacetylase gene OsHDT1 is associated with enhanced utilization of heterosis in rice [2].<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789.<br /> [2] Zhou Daoxiu, Li Chen, Huang Limin, Use of a Histone Deacetylase Gene OsHDT1 in Enhancing Rice Heterosis. GEN, 2010/04/29/.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=169102 2014-05-16T06:34:49Z

<p>Liangsara: /* Expression */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> The histone deacetylase gene OsHDT1 is associated with enhanced utilization of heterosis in rice [2].<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=168229 2014-05-11T11:58:29Z

<p>Liangsara: /* Expression */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice[1];<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1];<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid[1];<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=168228 2014-05-11T11:57:41Z

<p>Liangsara: /* Function */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation[1]:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods .<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice;<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice;<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid;<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=168227 2014-05-11T11:57:12Z

<p>Liangsara: /* References */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid.<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods .<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice;<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice;<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid;<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> [1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=168225 2014-05-11T11:32:47Z

<p>Liangsara: /* Function */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 function in histone deacetylation:<br /> OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.<br /> <br /> OsHDT1 function as a trans-acting regulator of hybrid differential gene expression:<br /> The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.<br /> <br /> OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid.<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods .<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice;<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice;<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid;<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=168219 2014-05-11T11:24:53Z

<p>Liangsara: /* Expression */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods .<br /> <br /> OsHDT1 over-expression affects the flowering time of hybrid rice;<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice;<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid;<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=168218 2014-05-11T11:24:35Z

<p>Liangsara: /* Function */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods .<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=168212 2014-05-11T11:09:23Z

<p>Liangsara: /* Function */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 over-expression affects the flowering time of hybrid rice;<br /> increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.<br /> <br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice;<br /> increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.<br /> <br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid;<br /> OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods .<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=168210 2014-05-11T10:57:16Z

<p>Liangsara: /* Function */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> OsHDT1 over-expression affects the flowering time of hybrid rice;<br /> OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice;<br /> Impact of altered OsHDT1 levels on gene expression in rice hybrid;<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods .<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=168208 2014-05-11T10:52:30Z

<p>Liangsara: /* Expression */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> Please input function information here.<br /> <br /> ===Expression===<br /> OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods .<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=168207 2014-05-11T10:46:02Z

<p>Liangsara: /* References */</p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> Please input function information here.<br /> <br /> ===Expression===<br /> Please input expression information here.<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> <br /> Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=168058 2014-05-10T14:45:30Z

<p>Liangsara: </p> <hr /> <div>OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> Please input function information here.<br /> <br /> ===Expression===<br /> Please input expression information here.<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> Please input cited references here.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os05g0597100&diff=167868 2014-05-09T10:16:07Z

<p>Liangsara: </p> <hr /> <div>OsHDT1,(Os05g0597100)is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.<br /> <br /> ==Annotated Information==<br /> ===Function===<br /> Please input function information here.<br /> <br /> ===Expression===<br /> Please input expression information here.<br /> <br /> ===Evolution===<br /> Please input evolution information here.<br /> <br /> You can also add sub-section(s) at will.<br /> <br /> ==Labs working on this gene==<br /> Please input related labs here.<br /> <br /> ==References==<br /> Please input cited references here.<br /> <br /> ==Structured Information==<br /> {{JaponicaGene|<br /> GeneName = Os05g0597100|<br /> Description = Similar to Nucleolar histone deacetylase HD2-p39|<br /> Version = NM_001063058.1 GI:115465846 GeneID:4339823|<br /> Length = 2800 bp|<br /> Definition = Oryza sativa Japonica Group Os05g0597100, complete gene.|<br /> Source = Oryza sativa Japonica Group<br /> <br /> ORGANISM Oryza sativa Japonica Group<br /> Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;<br /> Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP<br /> clade; Ehrhartoideae; Oryzeae; Oryza.<br /> |<br /> Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|<br /> AP = Chromosome 5:29835095..29837894|<br /> CDS = 29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283&lt;br&gt;,29836388..29836432,29836503..29836530,29836661..29836879,29836980..29837050&lt;br&gt;,29837799..29837811|<br /> GCID = &lt;gbrowseImage1&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage1&gt;|<br /> GSID = &lt;gbrowseImage2&gt;<br /> name=NC_008398:29835095..29837894<br /> source=RiceChromosome05<br /> preset=GeneLocation<br /> &lt;/gbrowseImage2&gt;|<br /> CDNA = &lt;cdnaseq&gt;atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga&lt;/cdnaseq&gt;|<br /> AA = &lt;aaseq&gt;MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK&lt;/aaseq&gt;|<br /> DNA = &lt;dnaseqindica&gt;2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg&lt;/dnaseqindica&gt;|<br /> Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001063058.1 RefSeq:Os05g0597100]|<br /> }}<br /> [[Category:Genes]]<br /> [[Category:Japonica mRNA]]<br /> [[Category:Oryza Sativa Japonica Group]]<br /> [[Category:Japonica Genes]]<br /> [[Category:Japonica Chromosome 5]]<br /> [[Category:Chromosome 5]]</div>

Liangsara