RiceWiki - User contributions [en]

Os09g0363900

2014-05-08T11:13:52Z

J9anuary: /* Expression */

0s09g0363900(see as ONI3) encodes a putative o-alcohol dehydrogenase that is necessary for avoiding organ fusions in rice.

==Annotated Information==
===Function===
Os09g0363900,also called "ONI3(or ONION3)",which is required for avoiding organ fusions in rice.Loss of function mutations of ONI3 showed abnormal organ fusions in developing shoots. The mutant seedlings showed fusions between neighboring organs and also within an organ; they stopped growing soon after germination and subsequently died. ONI3 encode an enzyme that is most similar to Arabidopsis HOTHEAD.<ref name="ref1" />
[[File:Function.png]]

===Expression===
ONI3 was expressed in shoots and developing embryos but not in leaves, roots or calli. To be more specific, ONI3 was expressed in the outermost cell layer of the SAM, young leaf and floral organs.In the embryo 7 days after pollination (DAP), ONI3 expression was detected in shoot organs such as the SAM,leaves and coleoptile. In the vegetative growth phase, at 1 month after germination, ONI3 expression was detected specifically in the outermost cell layer of the SAM and young leaves. In the reproductive growth phase, ONI3 expression was detected again in the outermost cell layer of developing floral organs. In the ovary, ONI3 expression was detected in the outermost cell layer of the ovary and ovule. Integuments also showed the expression. No signal was detected in the inner cells of any organs or at any developmental stages examined. These expression analyses revealed that ONI3 is an outermost cell layer-specific gene of the SAM and young above-ground organs throughout the life cycle.<ref name="ref1" /><ref name="ref2" />
[[File:Expression1.png||500px|]][[File:Expression2.png||500px|]]

===Evolution===
ONI3 encodes a protein similar to Arabidopsis HTH. HTH encodes an enzyme similar to long-chain fatty acid (LCFA) o-alcohol dehydrogenases, and was shown to be involved in biosynthesis of long-chain a-, o-dicarboxylic fatty acids. Since ONI3 and HTH showed high sequence identity (56% identity in
their entire amino acid sequences) and was categorized into the same clade in a phylogenetic tree, ONI3 also seemed to encode LCFA o-alcohol dehydrogenase and plays a role in biosynthesis of long-chain a-, o-dicarboxylic fatty acids, but this remains to be characterized biochemically.<ref name="ref1" /><ref name="ref3" />

A database search identified six homologs of ONI3 in the rice genome. Among them, Os08g0401500 was most similar to ONI3, and was categorized into the same clade that includes HTH. The amino acid sequences of ONI3 and Os08g0401500 were 72% identical to each other. ONI3 showed 32–50% amino acid identities with the remaining five homologs.<ref name="ref1" /><ref name="ref4" />
[[File:Evolution.png]]

You can also add sub-section(s) at will.

==Labs working on this gene==
Graduate School of Agricultural Science, Tohoku University, Sendai, 981-8555 Japan

==References==
<references>
<ref name="ref1">Akiba T, Hibara K, Kimura F, Tsuda K, Shibata K, Ishibashi M, Moriya C, Nakagawa K, Kurata N, Itoh J, Ito Y. (2014) Organ fusion and defective shoot development in oni3 mutants of rice.Plant Cell Physiol. 55(1): 42–51</ref>
<ref name="ref2">Fujita, M., Horiuchi, Y., Ueda, Y., Mizuta, Y., Kubo, T., Yano, K. et al.(2010) Rice expression atlas in reproductive development. Plant Cell Physiol. 51: 2060–2081</ref>
<ref name="ref3">Kurdyukov, S., Faust, A., Trenkamp, S., Bar, S., Franke, R., Efremova, N. et al. (2006) Genetic and biochemical evidence for involvement of HOTHEAD in the biosynthesis of long-chain a-, o-dicarboxylic fatty acids and formation of extracellular matrix. Planta 224: 315–329</ref>
<ref name="ref4">Kouchi, H. and Hata, S. (1993) Isolation and characterization of novel nodulin cDNAs representing genes expressed at early stages of soybean nodule development. Mol. Gen. Genet. 238: 106–119.</ref>
</references>

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0363900|
Description = Similar to HOTHEAD protein precursor (ADHESION OF CALYX EDGES protein)|
Version = NM_001069531.1 GI:115478804 GeneID:4346864|
Length = 5043 bp|
Definition = Oryza sativa Japonica Group Os09g0363900, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 9|Chromosome 9]]|
AP = Chromosome 9:12525599..12530641|
CDS = 12525764..12525818,12525923..12526494,12526947..12527335,12527480..12527793,12529490..12529844 ,12530466..12530538|
GCID = <gbrowseImage1>
name=NC_008402:12525599..12530641
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:12525599..12530641
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggctttgagcaagagaatgctattcatcttccaggccatggtttgcctctgctccttcagtttatcccaaggcaaccagcaattcagcttaaggaatctccctaccctccagaaggcgagcagcttcccagcgatgcgccacgagacatacgactacattgtcgtcggcgggggcaccgccggttgccccctggcggcgacattgtcgctcaagtacaaggtgctcctgctggagaggggagggtctccgtatggcaaccgcaacgtctcctacatggagaacttccacattggcctgagcaatatggcgccggactcggcgtctcaggccttcatctccactgacggcgtcatcaatgcccgagcgagggtgttgggaggtggcacctgcatcaatgccggcttctacagccgggccagctcaaacttcatccaggaggtaggctgggatgaagacctggtgaatgagtccttcccttgggtggaggacaagatcgtccagtggcctaagatcgcaccttggcaggctgcactaagggatgggctactccaagcaggtgtatctcctttcaatggctacacatatgaccatgtttctgggaccaaagttggtggcaccatctttgatgagactggctaccgccacacagcagccgacttacttgcagctggagaccctaacaacctaagggtgctgcttcatgctagtgtgaacaggatagtctttaactcgcagagagggcaactgaagccaagagcaaccggagttcagttcaccgatgagaatggaggactccaccaggcattcctcaacagcaactgtgatagtgaaatcattgtctctgctggcgcaattggcagcccccagctgctattgctcagtgggattggacccaagaatgaccttaggagccataaaattcctgtagttctccataacaagtatgtgggtaaagggatggctgataaccccatgaactccatattcataccgacgaaaagcccccctcgccagtccctgattgagactgttggaataactgaagctggtgtgttcattgaggccagtagtggttttggccagtcaccagaaagcatccattgccaccatggaatcatgtccgctgagattggacagctgtccacaattcctccgaaggaaagaagcctggaaaaagcacagaagtatgcaaataccaaacttaatctacccaaagagatattccatggtggttttatcctcgagaagattgatggtccactgtctacgggacatcttgccctgatagacactgatgtcaagaagaaccctgcggttaccttcaactacttcagtcatccacaggatctcactcgttgcgtctatggtatcaagaccattgaacgaatactgaagacaaaccgtttctctgaactgtctgccaacactgatggacattcaatggaaagagtgctcaatatgagtgtgcaggctaatgtgaacttgatacccaagcatacaaatgacacagaatccctagagcaattttgcagggatacagtaataaccatctggcactaccatggtggatgccatgtagggaaggtggttgatcagcaacaccgtgtgcttggagtttcaggcgtccgtgtagtcgatggctcaacattttctagatcaccagggacgaaccctcaagccacggtcatgatgatgggcagatattttggagtgatgatcctaaggggaagactaggtcgagcagctggagtgtaa</cdnaseq>|
AA = <aaseq>MALSKRMLFIFQAMVCLCSFSLSQGNQQFSLRNLPTLQKASSFP AMRHETYDYIVVGGGTAGCPLAATLSLKYKVLLLERGGSPYGNRNVSYMENFHIGLSN MAPDSASQAFISTDGVINARARVLGGGTCINAGFYSRASSNFIQEVGWDEDLVNESFP WVEDKIVQWPKIAPWQAALRDGLLQAGVSPFNGYTYDHVSGTKVGGTIFDETGYRHTA ADLLAAGDPNNLRVLLHASVNRIVFNSQRGQLKPRATGVQFTDENGGLHQAFLNSNCD SEIIVSAGAIGSPQLLLLSGIGPKNDLRSHKIPVVLHNKYVGKGMADNPMNSIFIPTK SPPRQSLIETVGITEAGVFIEASSGFGQSPESIHCHHGIMSAEIGQLSTIPPKERSLE KAQKYANTKLNLPKEIFHGGFILEKIDGPLSTGHLALIDTDVKKNPAVTFNYFSHPQD LTRCVYGIKTIERILKTNRFSELSANTDGHSMERVLNMSVQANVNLIPKHTNDTESLE QFCRDTVITIWHYHGGCHVGKVVDQQHRVLGVSGVRVVDGSTFSRSPGTNPQATVMMM GRYFGVMILRGRLGRAAGV</aaseq>|
DNA = <dnaseqindica>4824..4878#4148..4719#3307..3695#2849..3162#798..1152#104..176#aggaaacaggggagggagagaggttttgccaccgttgttttggagggaaggaaaatcctaagaaggggaaagagtttagcttggcaggtggttctcaggctcaatggctttgagcaagagaatgctattcatcttccaggccatggtttgcctctgctccttcagtttatcccaaggtgcgcatctcttgtggttctgtctcatctcatgtttctcaggcattcctcctctattctgtattctgtctcatctcatgtttctcaggcattcctcctttattctgtacatttctgttccaccttcccattgaagaacttgcaatggtgaaatgcagttatatatgctagtttttgcttagcttctttctcgcaagaatatcattatcacgtgcacttccattatctgacactttggttcctatcattgtttatcgccacattggcctcaccactagtatttgagagtagcagaacatctaatcattcagagttcaatatttagagattgaaggataggaaataaatagtcaacacaatgccacaagacgtacctctcatccagtcctaggaggtacaatgccaactgccaagaggtccagaccctagtaatcatagcatcaattagattgatacactcatttatcaacatgcaaaaacaggttatgtttttagataatgaaagcttttattgaagtcatgcaaaaaaaaaaagggggttatagcatgagaaacttacagcagaacaaagcaaaactttttcaggcaatgacaacattatggaacactttgttttctcaggcaaccagcaattcagcttaaggaatctccctaccctccagaaggcgagcagcttcccagcgatgcgccacgagacatacgactacattgtcgtcggcgggggcaccgccggttgccccctggcggcgacattgtcgctcaagtacaaggtgctcctgctggagaggggagggtctccgtatggcaaccgcaacgtctcctacatggagaacttccacattggcctgagcaatatggcgccggactcggcgtctcaggccttcatctccactgacggcgtcatcaatgcccgagcgagggtgttgggaggtggcacctgcatcaatgccggcttctacagccgggccagctcaaagtaagcaattgcattgcacagatatggatgctatcttgtgtatcagtattcttacctgattatgattgttctcttccgtctacgagtgaccagccaagagagttcacagttcacacatgcaaatttaaccttttttttactgccgaagtgcagaatggtcagcattaatatatacacacaaacatatgcaagagaattcacagttcacacatgcaaatttaacctttttttttactgccgaagtgcagaatggtctcaatcatgatcaagacttcagatataatttactattatattctttaccataagagggcaagcacaaatagcagagcctaaaatgaagttagcataagtagattaaatataccaagtagtctctcagtatatgcaacacatggcctatcactttcacatgaacaaacatcagctctagggtaaatgcagagcagtgatagtgccagtagaaattactaatggtaactggtaagatctgcttgactgctgccaccctagcatactgcagccacctttgttcacccttcaagtggagtaatagctgtctgctgaaacgtgcagcagaacactaaatattattcactgttctcaatagtagcattcaattaccatgaaaccaaagtttctgccaattaggattctctggctacaacctcttgtttcttttctccagcgtccaaatggaaaagggaaaacggggaaacaaacaaacactaattagtgtagctcaaataggttctaatcgactaaaatgagccagccaaaagacacaaatgcataaaaccaccacctgcattactagcactcactctagaacgtacccagcactgcatttggacatgattatcggttcactaggactacatattttggttggtatgattctagacttctagtttatggttatcaaaatgcaggctttctttgagatttatcacaatgcagctctgcaatatataacgaaataaaatccagctgtaaaattagcaaaggttgtactttgagtgcttgcatacaaatgagcactagtgagaaagttgataacataaagaaaataagcagattgcaaaagtggtttgcattaaagtgcttcagtctggtattgcaaataattaactacgctggcagcagcacatgctgtggttttctcagtgaataaaaagacttccttgctcttcttgcagtcatgaactacatgttactgaaacagactagattgaaaagagacattgatgaaaaaaaaaaagagagagacaacaaaacaaaatcacatggggctataattgtttctttgcagtcatggtaactaagttgtctaggcaaaggacactaaataactaaaaccctagtagactcgaggctacttcaagtttgggccaattagtacatatgcattcgaattatttgtacagaatcgaattacaataggtcaatgggtgggccccacacacccgtgctcatcagtcatccctagtgatatacctgctcattaccagaaacgccaatgtgacttaaaaggtatcaataattgataagcttaatcccgtagtcttcaagaaggaattttacttctatattgatattcatattggtgaactacatgttaaattgttattggtgaactacatgttaaattgctaataacttgtataccatgtgtttttgttcttgaaacaaacagcttcatccaggaggtaggctgggatgaagacctggtgaatgagtccttcccttgggtggaggacaagatcgtccagtggcctaagatcgcaccttggcaggctgcactaagggatgggctactccaagcaggtgtatctcctttcaatggctacacatatgaccatgtttctgggaccaaagttggtggcaccatctttgatgagactggctaccgccacacagcagccgacttacttgcagctggagaccctaacaacctaagggtgctgcttcatgctagtgtgaacaggatagtctttaactcgcagagaggtaaataattacacatgtgtggccaaagctcctacaagttgtattatcttctaaaatagagttatatagaattatatgccatgaatagaaagagtaagttcagtaatcacgtaccatatttcagatacaccatttctgatgcagggcaactgaagccaagagcaaccggagttcagttcaccgatgagaatggaggactccaccaggcattcctcaacagcaactgtgatagtgaaatcattgtctctgctggcgcaattggcagcccccagctgctattgctcagtgggattggacccaagaatgaccttaggagccataaaattcctgtagttctccataacaagtatgtgggtaaagggatggctgataaccccatgaactccatattcataccgacgaaaagcccccctcgccagtccctgattgagactgttggaataactgaagctggtgtgttcattgaggccagtagtggttttggccagtcaccagaaagcatccattgccaccatggaatcatgtccgctgaggtatgtcatcaatcttacttgcatcatgagaagctttttgtgcataaaataggtctaaagcagtatcacaaacatcaggaaaaagctgctgcttagatctgcagacttcaaaaaggaaaacagattctaaagtctaaactatcaaaactcacattttgcaacattgcaaacacaacttagaccaattcattaattacaggtgaatatgcatatgcatataatagtatattctaagaaataatacttatctgatttataagtcattgttttatgcttagattttctaggaatcagatctcagaattgaacttcttgtcttggagattaaaaaaaataagtgttgtctacattgcaacaactccaataactgccatcatagtttccattgttgtctcaatttgttccctacttggccttgttggtctaatacatattatattcctatggtacagattggacagctgtccacaattcctccgaaggaaagaagcctggaaaaagcacagaagtatgcaaataccaaacttaatctacccaaagagatattccatggtggttttatcctcgagaagattgatggtccactgtctacgggacatcttgccctgatagacactgatgtcaagaagaaccctgcggttaccttcaactacttcagtcatccacaggatctcactcgttgcgtctatggtatcaagaccattgaacgaatactgaagacaaaccgtttctctgaactgtctgccaacactgatggacattcaatggaaagagtgctcaatatgagtgtgcaggctaatgtgaacttgatacccaagcatacaaatgacacagaatccctagagcaattttgcagggatacagtaataaccatctggcactaccatggtggatgccatgtagggaaggtggttgatcagcaacaccgtgtgcttggagtttcaggcgtccgtgtagtcgatggctcaacattttctagatcaccagggacgaaccctcaagccacggtcatgatgatgggcaggtacataaacacagtaaaaaattaacttctttagtctttacctaatgatattctaactttaaactcttaaagactaaattgcttccctcatatttcatactcagatattttggagtgatgatcctaaggggaagactaggtcgagcagctggagtgtaatcgattcctggacaccagccttttgttatgtgtgacctagagaagaaaaattactaattattgctgggatctagtgtgattcaccgaagaaagacaagctaggagtttcatctgtacccagtaatcatttgtgtcatgtgatattgcagatcaaatggtttattg</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001069531.1 RefSeq:Os09g0363900]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0363900

2014-05-08T11:08:16Z

J9anuary: /* Expression */

0s09g0363900(see as ONI3) encodes a putative o-alcohol dehydrogenase that is necessary for avoiding organ fusions in rice.

==Annotated Information==
===Function===
Os09g0363900,also called "ONI3(or ONION3)",which is required for avoiding organ fusions in rice.Loss of function mutations of ONI3 showed abnormal organ fusions in developing shoots. The mutant seedlings showed fusions between neighboring organs and also within an organ; they stopped growing soon after germination and subsequently died. ONI3 encode an enzyme that is most similar to Arabidopsis HOTHEAD.<ref name="ref1" />
[[File:Function.png]]

===Expression===
ONI3 was expressed in shoots and developing embryos but not in leaves, roots or calli. To be more specific, ONI3 was expressed in the outermost cell layer of the SAM, young leaf and floral organs.In the embryo 7 days after pollination (DAP), ONI3 expression was detected in shoot organs such as the SAM,leaves and coleoptile. In the vegetative growth phase, at 1 month after germination, ONI3 expression was detected specifically in the outermost cell layer of the SAM and young leaves. In the reproductive growth phase, ONI3 expression was detected again in the outermost cell layer of developing floral organs. In the ovary, ONI3 expression was detected in the outermost cell layer of the ovary and ovule. Integuments also showed the expression. No signal was detected in the inner cells of any organs or at any developmental stages examined. These expression analyses revealed that ONI3 is an outermost cell layer-specific gene of the SAM and young above-ground organs throughout the life cycle.<ref name="ref1" /><ref name="ref2" />
[[File:Expression1.png]][[File:Expression2.png]]

===Evolution===
ONI3 encodes a protein similar to Arabidopsis HTH. HTH encodes an enzyme similar to long-chain fatty acid (LCFA) o-alcohol dehydrogenases, and was shown to be involved in biosynthesis of long-chain a-, o-dicarboxylic fatty acids. Since ONI3 and HTH showed high sequence identity (56% identity in
their entire amino acid sequences) and was categorized into the same clade in a phylogenetic tree, ONI3 also seemed to encode LCFA o-alcohol dehydrogenase and plays a role in biosynthesis of long-chain a-, o-dicarboxylic fatty acids, but this remains to be characterized biochemically.<ref name="ref1" /><ref name="ref3" />

A database search identified six homologs of ONI3 in the rice genome. Among them, Os08g0401500 was most similar to ONI3, and was categorized into the same clade that includes HTH. The amino acid sequences of ONI3 and Os08g0401500 were 72% identical to each other. ONI3 showed 32–50% amino acid identities with the remaining five homologs.<ref name="ref1" /><ref name="ref4" />
[[File:Evolution.png]]

You can also add sub-section(s) at will.

==Labs working on this gene==
Graduate School of Agricultural Science, Tohoku University, Sendai, 981-8555 Japan

==References==
<references>
<ref name="ref1">Akiba T, Hibara K, Kimura F, Tsuda K, Shibata K, Ishibashi M, Moriya C, Nakagawa K, Kurata N, Itoh J, Ito Y. (2014) Organ fusion and defective shoot development in oni3 mutants of rice.Plant Cell Physiol. 55(1): 42–51</ref>
<ref name="ref2">Fujita, M., Horiuchi, Y., Ueda, Y., Mizuta, Y., Kubo, T., Yano, K. et al.(2010) Rice expression atlas in reproductive development. Plant Cell Physiol. 51: 2060–2081</ref>
<ref name="ref3">Kurdyukov, S., Faust, A., Trenkamp, S., Bar, S., Franke, R., Efremova, N. et al. (2006) Genetic and biochemical evidence for involvement of HOTHEAD in the biosynthesis of long-chain a-, o-dicarboxylic fatty acids and formation of extracellular matrix. Planta 224: 315–329</ref>
<ref name="ref4">Kouchi, H. and Hata, S. (1993) Isolation and characterization of novel nodulin cDNAs representing genes expressed at early stages of soybean nodule development. Mol. Gen. Genet. 238: 106–119.</ref>
</references>

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0363900|
Description = Similar to HOTHEAD protein precursor (ADHESION OF CALYX EDGES protein)|
Version = NM_001069531.1 GI:115478804 GeneID:4346864|
Length = 5043 bp|
Definition = Oryza sativa Japonica Group Os09g0363900, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 9|Chromosome 9]]|
AP = Chromosome 9:12525599..12530641|
CDS = 12525764..12525818,12525923..12526494,12526947..12527335,12527480..12527793,12529490..12529844 ,12530466..12530538|
GCID = <gbrowseImage1>
name=NC_008402:12525599..12530641
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:12525599..12530641
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggctttgagcaagagaatgctattcatcttccaggccatggtttgcctctgctccttcagtttatcccaaggcaaccagcaattcagcttaaggaatctccctaccctccagaaggcgagcagcttcccagcgatgcgccacgagacatacgactacattgtcgtcggcgggggcaccgccggttgccccctggcggcgacattgtcgctcaagtacaaggtgctcctgctggagaggggagggtctccgtatggcaaccgcaacgtctcctacatggagaacttccacattggcctgagcaatatggcgccggactcggcgtctcaggccttcatctccactgacggcgtcatcaatgcccgagcgagggtgttgggaggtggcacctgcatcaatgccggcttctacagccgggccagctcaaacttcatccaggaggtaggctgggatgaagacctggtgaatgagtccttcccttgggtggaggacaagatcgtccagtggcctaagatcgcaccttggcaggctgcactaagggatgggctactccaagcaggtgtatctcctttcaatggctacacatatgaccatgtttctgggaccaaagttggtggcaccatctttgatgagactggctaccgccacacagcagccgacttacttgcagctggagaccctaacaacctaagggtgctgcttcatgctagtgtgaacaggatagtctttaactcgcagagagggcaactgaagccaagagcaaccggagttcagttcaccgatgagaatggaggactccaccaggcattcctcaacagcaactgtgatagtgaaatcattgtctctgctggcgcaattggcagcccccagctgctattgctcagtgggattggacccaagaatgaccttaggagccataaaattcctgtagttctccataacaagtatgtgggtaaagggatggctgataaccccatgaactccatattcataccgacgaaaagcccccctcgccagtccctgattgagactgttggaataactgaagctggtgtgttcattgaggccagtagtggttttggccagtcaccagaaagcatccattgccaccatggaatcatgtccgctgagattggacagctgtccacaattcctccgaaggaaagaagcctggaaaaagcacagaagtatgcaaataccaaacttaatctacccaaagagatattccatggtggttttatcctcgagaagattgatggtccactgtctacgggacatcttgccctgatagacactgatgtcaagaagaaccctgcggttaccttcaactacttcagtcatccacaggatctcactcgttgcgtctatggtatcaagaccattgaacgaatactgaagacaaaccgtttctctgaactgtctgccaacactgatggacattcaatggaaagagtgctcaatatgagtgtgcaggctaatgtgaacttgatacccaagcatacaaatgacacagaatccctagagcaattttgcagggatacagtaataaccatctggcactaccatggtggatgccatgtagggaaggtggttgatcagcaacaccgtgtgcttggagtttcaggcgtccgtgtagtcgatggctcaacattttctagatcaccagggacgaaccctcaagccacggtcatgatgatgggcagatattttggagtgatgatcctaaggggaagactaggtcgagcagctggagtgtaa</cdnaseq>|
AA = <aaseq>MALSKRMLFIFQAMVCLCSFSLSQGNQQFSLRNLPTLQKASSFP AMRHETYDYIVVGGGTAGCPLAATLSLKYKVLLLERGGSPYGNRNVSYMENFHIGLSN MAPDSASQAFISTDGVINARARVLGGGTCINAGFYSRASSNFIQEVGWDEDLVNESFP WVEDKIVQWPKIAPWQAALRDGLLQAGVSPFNGYTYDHVSGTKVGGTIFDETGYRHTA ADLLAAGDPNNLRVLLHASVNRIVFNSQRGQLKPRATGVQFTDENGGLHQAFLNSNCD SEIIVSAGAIGSPQLLLLSGIGPKNDLRSHKIPVVLHNKYVGKGMADNPMNSIFIPTK SPPRQSLIETVGITEAGVFIEASSGFGQSPESIHCHHGIMSAEIGQLSTIPPKERSLE KAQKYANTKLNLPKEIFHGGFILEKIDGPLSTGHLALIDTDVKKNPAVTFNYFSHPQD LTRCVYGIKTIERILKTNRFSELSANTDGHSMERVLNMSVQANVNLIPKHTNDTESLE QFCRDTVITIWHYHGGCHVGKVVDQQHRVLGVSGVRVVDGSTFSRSPGTNPQATVMMM GRYFGVMILRGRLGRAAGV</aaseq>|
DNA = <dnaseqindica>4824..4878#4148..4719#3307..3695#2849..3162#798..1152#104..176#aggaaacaggggagggagagaggttttgccaccgttgttttggagggaaggaaaatcctaagaaggggaaagagtttagcttggcaggtggttctcaggctcaatggctttgagcaagagaatgctattcatcttccaggccatggtttgcctctgctccttcagtttatcccaaggtgcgcatctcttgtggttctgtctcatctcatgtttctcaggcattcctcctctattctgtattctgtctcatctcatgtttctcaggcattcctcctttattctgtacatttctgttccaccttcccattgaagaacttgcaatggtgaaatgcagttatatatgctagtttttgcttagcttctttctcgcaagaatatcattatcacgtgcacttccattatctgacactttggttcctatcattgtttatcgccacattggcctcaccactagtatttgagagtagcagaacatctaatcattcagagttcaatatttagagattgaaggataggaaataaatagtcaacacaatgccacaagacgtacctctcatccagtcctaggaggtacaatgccaactgccaagaggtccagaccctagtaatcatagcatcaattagattgatacactcatttatcaacatgcaaaaacaggttatgtttttagataatgaaagcttttattgaagtcatgcaaaaaaaaaaagggggttatagcatgagaaacttacagcagaacaaagcaaaactttttcaggcaatgacaacattatggaacactttgttttctcaggcaaccagcaattcagcttaaggaatctccctaccctccagaaggcgagcagcttcccagcgatgcgccacgagacatacgactacattgtcgtcggcgggggcaccgccggttgccccctggcggcgacattgtcgctcaagtacaaggtgctcctgctggagaggggagggtctccgtatggcaaccgcaacgtctcctacatggagaacttccacattggcctgagcaatatggcgccggactcggcgtctcaggccttcatctccactgacggcgtcatcaatgcccgagcgagggtgttgggaggtggcacctgcatcaatgccggcttctacagccgggccagctcaaagtaagcaattgcattgcacagatatggatgctatcttgtgtatcagtattcttacctgattatgattgttctcttccgtctacgagtgaccagccaagagagttcacagttcacacatgcaaatttaaccttttttttactgccgaagtgcagaatggtcagcattaatatatacacacaaacatatgcaagagaattcacagttcacacatgcaaatttaacctttttttttactgccgaagtgcagaatggtctcaatcatgatcaagacttcagatataatttactattatattctttaccataagagggcaagcacaaatagcagagcctaaaatgaagttagcataagtagattaaatataccaagtagtctctcagtatatgcaacacatggcctatcactttcacatgaacaaacatcagctctagggtaaatgcagagcagtgatagtgccagtagaaattactaatggtaactggtaagatctgcttgactgctgccaccctagcatactgcagccacctttgttcacccttcaagtggagtaatagctgtctgctgaaacgtgcagcagaacactaaatattattcactgttctcaatagtagcattcaattaccatgaaaccaaagtttctgccaattaggattctctggctacaacctcttgtttcttttctccagcgtccaaatggaaaagggaaaacggggaaacaaacaaacactaattagtgtagctcaaataggttctaatcgactaaaatgagccagccaaaagacacaaatgcataaaaccaccacctgcattactagcactcactctagaacgtacccagcactgcatttggacatgattatcggttcactaggactacatattttggttggtatgattctagacttctagtttatggttatcaaaatgcaggctttctttgagatttatcacaatgcagctctgcaatatataacgaaataaaatccagctgtaaaattagcaaaggttgtactttgagtgcttgcatacaaatgagcactagtgagaaagttgataacataaagaaaataagcagattgcaaaagtggtttgcattaaagtgcttcagtctggtattgcaaataattaactacgctggcagcagcacatgctgtggttttctcagtgaataaaaagacttccttgctcttcttgcagtcatgaactacatgttactgaaacagactagattgaaaagagacattgatgaaaaaaaaaaagagagagacaacaaaacaaaatcacatggggctataattgtttctttgcagtcatggtaactaagttgtctaggcaaaggacactaaataactaaaaccctagtagactcgaggctacttcaagtttgggccaattagtacatatgcattcgaattatttgtacagaatcgaattacaataggtcaatgggtgggccccacacacccgtgctcatcagtcatccctagtgatatacctgctcattaccagaaacgccaatgtgacttaaaaggtatcaataattgataagcttaatcccgtagtcttcaagaaggaattttacttctatattgatattcatattggtgaactacatgttaaattgttattggtgaactacatgttaaattgctaataacttgtataccatgtgtttttgttcttgaaacaaacagcttcatccaggaggtaggctgggatgaagacctggtgaatgagtccttcccttgggtggaggacaagatcgtccagtggcctaagatcgcaccttggcaggctgcactaagggatgggctactccaagcaggtgtatctcctttcaatggctacacatatgaccatgtttctgggaccaaagttggtggcaccatctttgatgagactggctaccgccacacagcagccgacttacttgcagctggagaccctaacaacctaagggtgctgcttcatgctagtgtgaacaggatagtctttaactcgcagagaggtaaataattacacatgtgtggccaaagctcctacaagttgtattatcttctaaaatagagttatatagaattatatgccatgaatagaaagagtaagttcagtaatcacgtaccatatttcagatacaccatttctgatgcagggcaactgaagccaagagcaaccggagttcagttcaccgatgagaatggaggactccaccaggcattcctcaacagcaactgtgatagtgaaatcattgtctctgctggcgcaattggcagcccccagctgctattgctcagtgggattggacccaagaatgaccttaggagccataaaattcctgtagttctccataacaagtatgtgggtaaagggatggctgataaccccatgaactccatattcataccgacgaaaagcccccctcgccagtccctgattgagactgttggaataactgaagctggtgtgttcattgaggccagtagtggttttggccagtcaccagaaagcatccattgccaccatggaatcatgtccgctgaggtatgtcatcaatcttacttgcatcatgagaagctttttgtgcataaaataggtctaaagcagtatcacaaacatcaggaaaaagctgctgcttagatctgcagacttcaaaaaggaaaacagattctaaagtctaaactatcaaaactcacattttgcaacattgcaaacacaacttagaccaattcattaattacaggtgaatatgcatatgcatataatagtatattctaagaaataatacttatctgatttataagtcattgttttatgcttagattttctaggaatcagatctcagaattgaacttcttgtcttggagattaaaaaaaataagtgttgtctacattgcaacaactccaataactgccatcatagtttccattgttgtctcaatttgttccctacttggccttgttggtctaatacatattatattcctatggtacagattggacagctgtccacaattcctccgaaggaaagaagcctggaaaaagcacagaagtatgcaaataccaaacttaatctacccaaagagatattccatggtggttttatcctcgagaagattgatggtccactgtctacgggacatcttgccctgatagacactgatgtcaagaagaaccctgcggttaccttcaactacttcagtcatccacaggatctcactcgttgcgtctatggtatcaagaccattgaacgaatactgaagacaaaccgtttctctgaactgtctgccaacactgatggacattcaatggaaagagtgctcaatatgagtgtgcaggctaatgtgaacttgatacccaagcatacaaatgacacagaatccctagagcaattttgcagggatacagtaataaccatctggcactaccatggtggatgccatgtagggaaggtggttgatcagcaacaccgtgtgcttggagtttcaggcgtccgtgtagtcgatggctcaacattttctagatcaccagggacgaaccctcaagccacggtcatgatgatgggcaggtacataaacacagtaaaaaattaacttctttagtctttacctaatgatattctaactttaaactcttaaagactaaattgcttccctcatatttcatactcagatattttggagtgatgatcctaaggggaagactaggtcgagcagctggagtgtaatcgattcctggacaccagccttttgttatgtgtgacctagagaagaaaaattactaattattgctgggatctagtgtgattcaccgaagaaagacaagctaggagtttcatctgtacccagtaatcatttgtgtcatgtgatattgcagatcaaatggtttattg</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001069531.1 RefSeq:Os09g0363900]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0363900

2014-05-07T18:09:30Z

J9anuary:

0s09g0363900(see as ONI3) encodes a putative o-alcohol dehydrogenase that is necessary for avoiding organ fusions in rice.

==Annotated Information==
===Function===
Os09g0363900,also called "ONI3(or ONION3)",which is required for avoiding organ fusions in rice.Loss of function mutations of ONI3 showed abnormal organ fusions in developing shoots. The mutant seedlings showed fusions between neighboring organs and also within an organ; they stopped growing soon after germination and subsequently died. ONI3 encode an enzyme that is most similar to Arabidopsis HOTHEAD.<ref name="ref1" />
[[File:Function.png]]

===Expression===
ONI3 was expressed in shoots and developing embryos but not in leaves, roots or calli. To be more specific, ONI3 was expressed in the outermost cell layer of the SAM, young leaf and floral organs.In the embryo 7 days after pollination (DAP), ONI3 expression was detected in shoot organs such as the SAM,leaves and coleoptile. In the vegetative growth phase, at 1 month after germination, ONI3 expression was detected specifically in the outermost cell layer of the SAM and young leaves. In the reproductive growth phase, ONI3 expression was detected again in the outermost cell layer of developing floral organs. In the ovary, ONI3 expression was detected in the outermost cell layer of the ovary and ovule. Integuments also showed the expression. No signal was detected in the inner cells of any organs or at any developmental stages examined. These expression analyses revealed that ONI3 is an outermost cell layer-specific gene of the SAM and young above-ground organs throughout the life cycle.<ref name="ref1" /><ref name="ref2" />
[[File:Expression1.png]]
[[File:Expression2.png]]

===Evolution===
ONI3 encodes a protein similar to Arabidopsis HTH. HTH encodes an enzyme similar to long-chain fatty acid (LCFA) o-alcohol dehydrogenases, and was shown to be involved in biosynthesis of long-chain a-, o-dicarboxylic fatty acids. Since ONI3 and HTH showed high sequence identity (56% identity in
their entire amino acid sequences) and was categorized into the same clade in a phylogenetic tree, ONI3 also seemed to encode LCFA o-alcohol dehydrogenase and plays a role in biosynthesis of long-chain a-, o-dicarboxylic fatty acids, but this remains to be characterized biochemically.<ref name="ref1" /><ref name="ref3" />

A database search identified six homologs of ONI3 in the rice genome. Among them, Os08g0401500 was most similar to ONI3, and was categorized into the same clade that includes HTH. The amino acid sequences of ONI3 and Os08g0401500 were 72% identical to each other. ONI3 showed 32–50% amino acid identities with the remaining five homologs.<ref name="ref1" /><ref name="ref4" />
[[File:Evolution.png]]

You can also add sub-section(s) at will.

==Labs working on this gene==
Graduate School of Agricultural Science, Tohoku University, Sendai, 981-8555 Japan

==References==
<references>
<ref name="ref1">Akiba T, Hibara K, Kimura F, Tsuda K, Shibata K, Ishibashi M, Moriya C, Nakagawa K, Kurata N, Itoh J, Ito Y. (2014) Organ fusion and defective shoot development in oni3 mutants of rice.Plant Cell Physiol. 55(1): 42–51</ref>
<ref name="ref2">Fujita, M., Horiuchi, Y., Ueda, Y., Mizuta, Y., Kubo, T., Yano, K. et al.(2010) Rice expression atlas in reproductive development. Plant Cell Physiol. 51: 2060–2081</ref>
<ref name="ref3">Kurdyukov, S., Faust, A., Trenkamp, S., Bar, S., Franke, R., Efremova, N. et al. (2006) Genetic and biochemical evidence for involvement of HOTHEAD in the biosynthesis of long-chain a-, o-dicarboxylic fatty acids and formation of extracellular matrix. Planta 224: 315–329</ref>
<ref name="ref4">Kouchi, H. and Hata, S. (1993) Isolation and characterization of novel nodulin cDNAs representing genes expressed at early stages of soybean nodule development. Mol. Gen. Genet. 238: 106–119.</ref>
</references>

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0363900|
Description = Similar to HOTHEAD protein precursor (ADHESION OF CALYX EDGES protein)|
Version = NM_001069531.1 GI:115478804 GeneID:4346864|
Length = 5043 bp|
Definition = Oryza sativa Japonica Group Os09g0363900, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 9|Chromosome 9]]|
AP = Chromosome 9:12525599..12530641|
CDS = 12525764..12525818,12525923..12526494,12526947..12527335,12527480..12527793,12529490..12529844 ,12530466..12530538|
GCID = <gbrowseImage1>
name=NC_008402:12525599..12530641
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:12525599..12530641
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggctttgagcaagagaatgctattcatcttccaggccatggtttgcctctgctccttcagtttatcccaaggcaaccagcaattcagcttaaggaatctccctaccctccagaaggcgagcagcttcccagcgatgcgccacgagacatacgactacattgtcgtcggcgggggcaccgccggttgccccctggcggcgacattgtcgctcaagtacaaggtgctcctgctggagaggggagggtctccgtatggcaaccgcaacgtctcctacatggagaacttccacattggcctgagcaatatggcgccggactcggcgtctcaggccttcatctccactgacggcgtcatcaatgcccgagcgagggtgttgggaggtggcacctgcatcaatgccggcttctacagccgggccagctcaaacttcatccaggaggtaggctgggatgaagacctggtgaatgagtccttcccttgggtggaggacaagatcgtccagtggcctaagatcgcaccttggcaggctgcactaagggatgggctactccaagcaggtgtatctcctttcaatggctacacatatgaccatgtttctgggaccaaagttggtggcaccatctttgatgagactggctaccgccacacagcagccgacttacttgcagctggagaccctaacaacctaagggtgctgcttcatgctagtgtgaacaggatagtctttaactcgcagagagggcaactgaagccaagagcaaccggagttcagttcaccgatgagaatggaggactccaccaggcattcctcaacagcaactgtgatagtgaaatcattgtctctgctggcgcaattggcagcccccagctgctattgctcagtgggattggacccaagaatgaccttaggagccataaaattcctgtagttctccataacaagtatgtgggtaaagggatggctgataaccccatgaactccatattcataccgacgaaaagcccccctcgccagtccctgattgagactgttggaataactgaagctggtgtgttcattgaggccagtagtggttttggccagtcaccagaaagcatccattgccaccatggaatcatgtccgctgagattggacagctgtccacaattcctccgaaggaaagaagcctggaaaaagcacagaagtatgcaaataccaaacttaatctacccaaagagatattccatggtggttttatcctcgagaagattgatggtccactgtctacgggacatcttgccctgatagacactgatgtcaagaagaaccctgcggttaccttcaactacttcagtcatccacaggatctcactcgttgcgtctatggtatcaagaccattgaacgaatactgaagacaaaccgtttctctgaactgtctgccaacactgatggacattcaatggaaagagtgctcaatatgagtgtgcaggctaatgtgaacttgatacccaagcatacaaatgacacagaatccctagagcaattttgcagggatacagtaataaccatctggcactaccatggtggatgccatgtagggaaggtggttgatcagcaacaccgtgtgcttggagtttcaggcgtccgtgtagtcgatggctcaacattttctagatcaccagggacgaaccctcaagccacggtcatgatgatgggcagatattttggagtgatgatcctaaggggaagactaggtcgagcagctggagtgtaa</cdnaseq>|
AA = <aaseq>MALSKRMLFIFQAMVCLCSFSLSQGNQQFSLRNLPTLQKASSFP AMRHETYDYIVVGGGTAGCPLAATLSLKYKVLLLERGGSPYGNRNVSYMENFHIGLSN MAPDSASQAFISTDGVINARARVLGGGTCINAGFYSRASSNFIQEVGWDEDLVNESFP WVEDKIVQWPKIAPWQAALRDGLLQAGVSPFNGYTYDHVSGTKVGGTIFDETGYRHTA ADLLAAGDPNNLRVLLHASVNRIVFNSQRGQLKPRATGVQFTDENGGLHQAFLNSNCD SEIIVSAGAIGSPQLLLLSGIGPKNDLRSHKIPVVLHNKYVGKGMADNPMNSIFIPTK SPPRQSLIETVGITEAGVFIEASSGFGQSPESIHCHHGIMSAEIGQLSTIPPKERSLE KAQKYANTKLNLPKEIFHGGFILEKIDGPLSTGHLALIDTDVKKNPAVTFNYFSHPQD LTRCVYGIKTIERILKTNRFSELSANTDGHSMERVLNMSVQANVNLIPKHTNDTESLE QFCRDTVITIWHYHGGCHVGKVVDQQHRVLGVSGVRVVDGSTFSRSPGTNPQATVMMM GRYFGVMILRGRLGRAAGV</aaseq>|
DNA = <dnaseqindica>4824..4878#4148..4719#3307..3695#2849..3162#798..1152#104..176#aggaaacaggggagggagagaggttttgccaccgttgttttggagggaaggaaaatcctaagaaggggaaagagtttagcttggcaggtggttctcaggctcaatggctttgagcaagagaatgctattcatcttccaggccatggtttgcctctgctccttcagtttatcccaaggtgcgcatctcttgtggttctgtctcatctcatgtttctcaggcattcctcctctattctgtattctgtctcatctcatgtttctcaggcattcctcctttattctgtacatttctgttccaccttcccattgaagaacttgcaatggtgaaatgcagttatatatgctagtttttgcttagcttctttctcgcaagaatatcattatcacgtgcacttccattatctgacactttggttcctatcattgtttatcgccacattggcctcaccactagtatttgagagtagcagaacatctaatcattcagagttcaatatttagagattgaaggataggaaataaatagtcaacacaatgccacaagacgtacctctcatccagtcctaggaggtacaatgccaactgccaagaggtccagaccctagtaatcatagcatcaattagattgatacactcatttatcaacatgcaaaaacaggttatgtttttagataatgaaagcttttattgaagtcatgcaaaaaaaaaaagggggttatagcatgagaaacttacagcagaacaaagcaaaactttttcaggcaatgacaacattatggaacactttgttttctcaggcaaccagcaattcagcttaaggaatctccctaccctccagaaggcgagcagcttcccagcgatgcgccacgagacatacgactacattgtcgtcggcgggggcaccgccggttgccccctggcggcgacattgtcgctcaagtacaaggtgctcctgctggagaggggagggtctccgtatggcaaccgcaacgtctcctacatggagaacttccacattggcctgagcaatatggcgccggactcggcgtctcaggccttcatctccactgacggcgtcatcaatgcccgagcgagggtgttgggaggtggcacctgcatcaatgccggcttctacagccgggccagctcaaagtaagcaattgcattgcacagatatggatgctatcttgtgtatcagtattcttacctgattatgattgttctcttccgtctacgagtgaccagccaagagagttcacagttcacacatgcaaatttaaccttttttttactgccgaagtgcagaatggtcagcattaatatatacacacaaacatatgcaagagaattcacagttcacacatgcaaatttaacctttttttttactgccgaagtgcagaatggtctcaatcatgatcaagacttcagatataatttactattatattctttaccataagagggcaagcacaaatagcagagcctaaaatgaagttagcataagtagattaaatataccaagtagtctctcagtatatgcaacacatggcctatcactttcacatgaacaaacatcagctctagggtaaatgcagagcagtgatagtgccagtagaaattactaatggtaactggtaagatctgcttgactgctgccaccctagcatactgcagccacctttgttcacccttcaagtggagtaatagctgtctgctgaaacgtgcagcagaacactaaatattattcactgttctcaatagtagcattcaattaccatgaaaccaaagtttctgccaattaggattctctggctacaacctcttgtttcttttctccagcgtccaaatggaaaagggaaaacggggaaacaaacaaacactaattagtgtagctcaaataggttctaatcgactaaaatgagccagccaaaagacacaaatgcataaaaccaccacctgcattactagcactcactctagaacgtacccagcactgcatttggacatgattatcggttcactaggactacatattttggttggtatgattctagacttctagtttatggttatcaaaatgcaggctttctttgagatttatcacaatgcagctctgcaatatataacgaaataaaatccagctgtaaaattagcaaaggttgtactttgagtgcttgcatacaaatgagcactagtgagaaagttgataacataaagaaaataagcagattgcaaaagtggtttgcattaaagtgcttcagtctggtattgcaaataattaactacgctggcagcagcacatgctgtggttttctcagtgaataaaaagacttccttgctcttcttgcagtcatgaactacatgttactgaaacagactagattgaaaagagacattgatgaaaaaaaaaaagagagagacaacaaaacaaaatcacatggggctataattgtttctttgcagtcatggtaactaagttgtctaggcaaaggacactaaataactaaaaccctagtagactcgaggctacttcaagtttgggccaattagtacatatgcattcgaattatttgtacagaatcgaattacaataggtcaatgggtgggccccacacacccgtgctcatcagtcatccctagtgatatacctgctcattaccagaaacgccaatgtgacttaaaaggtatcaataattgataagcttaatcccgtagtcttcaagaaggaattttacttctatattgatattcatattggtgaactacatgttaaattgttattggtgaactacatgttaaattgctaataacttgtataccatgtgtttttgttcttgaaacaaacagcttcatccaggaggtaggctgggatgaagacctggtgaatgagtccttcccttgggtggaggacaagatcgtccagtggcctaagatcgcaccttggcaggctgcactaagggatgggctactccaagcaggtgtatctcctttcaatggctacacatatgaccatgtttctgggaccaaagttggtggcaccatctttgatgagactggctaccgccacacagcagccgacttacttgcagctggagaccctaacaacctaagggtgctgcttcatgctagtgtgaacaggatagtctttaactcgcagagaggtaaataattacacatgtgtggccaaagctcctacaagttgtattatcttctaaaatagagttatatagaattatatgccatgaatagaaagagtaagttcagtaatcacgtaccatatttcagatacaccatttctgatgcagggcaactgaagccaagagcaaccggagttcagttcaccgatgagaatggaggactccaccaggcattcctcaacagcaactgtgatagtgaaatcattgtctctgctggcgcaattggcagcccccagctgctattgctcagtgggattggacccaagaatgaccttaggagccataaaattcctgtagttctccataacaagtatgtgggtaaagggatggctgataaccccatgaactccatattcataccgacgaaaagcccccctcgccagtccctgattgagactgttggaataactgaagctggtgtgttcattgaggccagtagtggttttggccagtcaccagaaagcatccattgccaccatggaatcatgtccgctgaggtatgtcatcaatcttacttgcatcatgagaagctttttgtgcataaaataggtctaaagcagtatcacaaacatcaggaaaaagctgctgcttagatctgcagacttcaaaaaggaaaacagattctaaagtctaaactatcaaaactcacattttgcaacattgcaaacacaacttagaccaattcattaattacaggtgaatatgcatatgcatataatagtatattctaagaaataatacttatctgatttataagtcattgttttatgcttagattttctaggaatcagatctcagaattgaacttcttgtcttggagattaaaaaaaataagtgttgtctacattgcaacaactccaataactgccatcatagtttccattgttgtctcaatttgttccctacttggccttgttggtctaatacatattatattcctatggtacagattggacagctgtccacaattcctccgaaggaaagaagcctggaaaaagcacagaagtatgcaaataccaaacttaatctacccaaagagatattccatggtggttttatcctcgagaagattgatggtccactgtctacgggacatcttgccctgatagacactgatgtcaagaagaaccctgcggttaccttcaactacttcagtcatccacaggatctcactcgttgcgtctatggtatcaagaccattgaacgaatactgaagacaaaccgtttctctgaactgtctgccaacactgatggacattcaatggaaagagtgctcaatatgagtgtgcaggctaatgtgaacttgatacccaagcatacaaatgacacagaatccctagagcaattttgcagggatacagtaataaccatctggcactaccatggtggatgccatgtagggaaggtggttgatcagcaacaccgtgtgcttggagtttcaggcgtccgtgtagtcgatggctcaacattttctagatcaccagggacgaaccctcaagccacggtcatgatgatgggcaggtacataaacacagtaaaaaattaacttctttagtctttacctaatgatattctaactttaaactcttaaagactaaattgcttccctcatatttcatactcagatattttggagtgatgatcctaaggggaagactaggtcgagcagctggagtgtaatcgattcctggacaccagccttttgttatgtgtgacctagagaagaaaaattactaattattgctgggatctagtgtgattcaccgaagaaagacaagctaggagtttcatctgtacccagtaatcatttgtgtcatgtgatattgcagatcaaatggtttattg</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001069531.1 RefSeq:Os09g0363900]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

File:Expression2.png

2014-05-07T18:05:04Z

J9anuary:

File:Expression1.png

2014-05-07T18:04:47Z

J9anuary:

File:Function.png

2014-05-07T18:02:09Z

J9anuary:

2014-05-07T15:55:44Z

J9anuary:

Please input one-sentence summary here.

==Annotated Information==
===Function===
Os09g0363900,also called "ONI3(or ONION3)",which is required for avoiding organ fusions in rice.Loss of function mutations of ONI3 showed abnormal organ fusions in developing shoots. The mutant seedlings showed fusions between neighboring organs and also within an organ; they stopped growing soon after germination and subsequently died. ONI3 encode an enzyme that is most similar to Arabidopsis HOTHEAD.

===Expression===
ONI3 was expressed in shoots and developing embryos but not in leaves, roots or calli. To be more specific, ONI3 was expressed in the outermost cell layer of the SAM, young leaf and floral organs.In the embryo 7 days after pollination (DAP), ONI3 expression was detected in shoot organs such as the SAM,leaves and coleoptile. In the vegetative growth phase, at 1 month after germination, ONI3 expression was detected specifically in the outermost cell layer of the SAM and young leaves. In the reproductive growth phase, ONI3 expression was detected again in the outermost cell layer of developing floral organs. In the ovary, ONI3 expression was detected in the outermost cell layer of the ovary and ovule. Integuments also showed the expression. No signal was detected in the inner cells of any organs or at any developmental stages examined. These expression analyses revealed that ONI3 is an outermost cell layer-specific gene of the SAM and young above-ground organs throughout the life cycle.

===Evolution===
ONI3 encodes a protein similar to Arabidopsis HTH. HTH encodes an enzyme similar to long-chain fatty acid (LCFA) o-alcohol dehydrogenases, and was shown to be involved in biosynthesis of long-chain a-, o-dicarboxylic fatty acids. Since ONI3 and HTH showed high sequence identity (56% identity in
their entire amino acid sequences) and was categorized into the same clade in a phylogenetic tree, ONI3 also seemed to encode LCFA o-alcohol dehydrogenase and plays a role in biosynthesis of long-chain a-, o-dicarboxylic fatty acids, but this remains to be characterized biochemically.
You can also add sub-section(s) at will.

==Labs working on this gene==
Graduate School of Agricultural Science, Tohoku University, Sendai, 981-8555 Japan

==References==
Takafumi Akiba, Ken-Ichiro Hibara, Fumiko Kimura, Katsutoshi Tsuda,Kiko Shibata,Mayu Ishibashi,Chihiro Moriya,Kiyotaka Nakagawa, Nori Kurata,Jun-Ichi Itoh and Yukihiro Ito*. (2014) Organ fusion and defective shoot development in oni3 mutants of rice.Plant Cell Physiol. 55(1): 42–51

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0363900|
Description = Similar to HOTHEAD protein precursor (ADHESION OF CALYX EDGES protein)|
Version = NM_001069531.1 GI:115478804 GeneID:4346864|
Length = 5043 bp|
Definition = Oryza sativa Japonica Group Os09g0363900, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 9|Chromosome 9]]|
AP = Chromosome 9:12525599..12530641|
CDS = 12525764..12525818,12525923..12526494,12526947..12527335,12527480..12527793,12529490..12529844 ,12530466..12530538|
GCID = <gbrowseImage1>
name=NC_008402:12525599..12530641
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:12525599..12530641
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggctttgagcaagagaatgctattcatcttccaggccatggtttgcctctgctccttcagtttatcccaaggcaaccagcaattcagcttaaggaatctccctaccctccagaaggcgagcagcttcccagcgatgcgccacgagacatacgactacattgtcgtcggcgggggcaccgccggttgccccctggcggcgacattgtcgctcaagtacaaggtgctcctgctggagaggggagggtctccgtatggcaaccgcaacgtctcctacatggagaacttccacattggcctgagcaatatggcgccggactcggcgtctcaggccttcatctccactgacggcgtcatcaatgcccgagcgagggtgttgggaggtggcacctgcatcaatgccggcttctacagccgggccagctcaaacttcatccaggaggtaggctgggatgaagacctggtgaatgagtccttcccttgggtggaggacaagatcgtccagtggcctaagatcgcaccttggcaggctgcactaagggatgggctactccaagcaggtgtatctcctttcaatggctacacatatgaccatgtttctgggaccaaagttggtggcaccatctttgatgagactggctaccgccacacagcagccgacttacttgcagctggagaccctaacaacctaagggtgctgcttcatgctagtgtgaacaggatagtctttaactcgcagagagggcaactgaagccaagagcaaccggagttcagttcaccgatgagaatggaggactccaccaggcattcctcaacagcaactgtgatagtgaaatcattgtctctgctggcgcaattggcagcccccagctgctattgctcagtgggattggacccaagaatgaccttaggagccataaaattcctgtagttctccataacaagtatgtgggtaaagggatggctgataaccccatgaactccatattcataccgacgaaaagcccccctcgccagtccctgattgagactgttggaataactgaagctggtgtgttcattgaggccagtagtggttttggccagtcaccagaaagcatccattgccaccatggaatcatgtccgctgagattggacagctgtccacaattcctccgaaggaaagaagcctggaaaaagcacagaagtatgcaaataccaaacttaatctacccaaagagatattccatggtggttttatcctcgagaagattgatggtccactgtctacgggacatcttgccctgatagacactgatgtcaagaagaaccctgcggttaccttcaactacttcagtcatccacaggatctcactcgttgcgtctatggtatcaagaccattgaacgaatactgaagacaaaccgtttctctgaactgtctgccaacactgatggacattcaatggaaagagtgctcaatatgagtgtgcaggctaatgtgaacttgatacccaagcatacaaatgacacagaatccctagagcaattttgcagggatacagtaataaccatctggcactaccatggtggatgccatgtagggaaggtggttgatcagcaacaccgtgtgcttggagtttcaggcgtccgtgtagtcgatggctcaacattttctagatcaccagggacgaaccctcaagccacggtcatgatgatgggcagatattttggagtgatgatcctaaggggaagactaggtcgagcagctggagtgtaa</cdnaseq>|
AA = <aaseq>MALSKRMLFIFQAMVCLCSFSLSQGNQQFSLRNLPTLQKASSFP AMRHETYDYIVVGGGTAGCPLAATLSLKYKVLLLERGGSPYGNRNVSYMENFHIGLSN MAPDSASQAFISTDGVINARARVLGGGTCINAGFYSRASSNFIQEVGWDEDLVNESFP WVEDKIVQWPKIAPWQAALRDGLLQAGVSPFNGYTYDHVSGTKVGGTIFDETGYRHTA ADLLAAGDPNNLRVLLHASVNRIVFNSQRGQLKPRATGVQFTDENGGLHQAFLNSNCD SEIIVSAGAIGSPQLLLLSGIGPKNDLRSHKIPVVLHNKYVGKGMADNPMNSIFIPTK SPPRQSLIETVGITEAGVFIEASSGFGQSPESIHCHHGIMSAEIGQLSTIPPKERSLE KAQKYANTKLNLPKEIFHGGFILEKIDGPLSTGHLALIDTDVKKNPAVTFNYFSHPQD LTRCVYGIKTIERILKTNRFSELSANTDGHSMERVLNMSVQANVNLIPKHTNDTESLE QFCRDTVITIWHYHGGCHVGKVVDQQHRVLGVSGVRVVDGSTFSRSPGTNPQATVMMM GRYFGVMILRGRLGRAAGV</aaseq>|
DNA = <dnaseqindica>4824..4878#4148..4719#3307..3695#2849..3162#798..1152#104..176#aggaaacaggggagggagagaggttttgccaccgttgttttggagggaaggaaaatcctaagaaggggaaagagtttagcttggcaggtggttctcaggctcaatggctttgagcaagagaatgctattcatcttccaggccatggtttgcctctgctccttcagtttatcccaaggtgcgcatctcttgtggttctgtctcatctcatgtttctcaggcattcctcctctattctgtattctgtctcatctcatgtttctcaggcattcctcctttattctgtacatttctgttccaccttcccattgaagaacttgcaatggtgaaatgcagttatatatgctagtttttgcttagcttctttctcgcaagaatatcattatcacgtgcacttccattatctgacactttggttcctatcattgtttatcgccacattggcctcaccactagtatttgagagtagcagaacatctaatcattcagagttcaatatttagagattgaaggataggaaataaatagtcaacacaatgccacaagacgtacctctcatccagtcctaggaggtacaatgccaactgccaagaggtccagaccctagtaatcatagcatcaattagattgatacactcatttatcaacatgcaaaaacaggttatgtttttagataatgaaagcttttattgaagtcatgcaaaaaaaaaaagggggttatagcatgagaaacttacagcagaacaaagcaaaactttttcaggcaatgacaacattatggaacactttgttttctcaggcaaccagcaattcagcttaaggaatctccctaccctccagaaggcgagcagcttcccagcgatgcgccacgagacatacgactacattgtcgtcggcgggggcaccgccggttgccccctggcggcgacattgtcgctcaagtacaaggtgctcctgctggagaggggagggtctccgtatggcaaccgcaacgtctcctacatggagaacttccacattggcctgagcaatatggcgccggactcggcgtctcaggccttcatctccactgacggcgtcatcaatgcccgagcgagggtgttgggaggtggcacctgcatcaatgccggcttctacagccgggccagctcaaagtaagcaattgcattgcacagatatggatgctatcttgtgtatcagtattcttacctgattatgattgttctcttccgtctacgagtgaccagccaagagagttcacagttcacacatgcaaatttaaccttttttttactgccgaagtgcagaatggtcagcattaatatatacacacaaacatatgcaagagaattcacagttcacacatgcaaatttaacctttttttttactgccgaagtgcagaatggtctcaatcatgatcaagacttcagatataatttactattatattctttaccataagagggcaagcacaaatagcagagcctaaaatgaagttagcataagtagattaaatataccaagtagtctctcagtatatgcaacacatggcctatcactttcacatgaacaaacatcagctctagggtaaatgcagagcagtgatagtgccagtagaaattactaatggtaactggtaagatctgcttgactgctgccaccctagcatactgcagccacctttgttcacccttcaagtggagtaatagctgtctgctgaaacgtgcagcagaacactaaatattattcactgttctcaatagtagcattcaattaccatgaaaccaaagtttctgccaattaggattctctggctacaacctcttgtttcttttctccagcgtccaaatggaaaagggaaaacggggaaacaaacaaacactaattagtgtagctcaaataggttctaatcgactaaaatgagccagccaaaagacacaaatgcataaaaccaccacctgcattactagcactcactctagaacgtacccagcactgcatttggacatgattatcggttcactaggactacatattttggttggtatgattctagacttctagtttatggttatcaaaatgcaggctttctttgagatttatcacaatgcagctctgcaatatataacgaaataaaatccagctgtaaaattagcaaaggttgtactttgagtgcttgcatacaaatgagcactagtgagaaagttgataacataaagaaaataagcagattgcaaaagtggtttgcattaaagtgcttcagtctggtattgcaaataattaactacgctggcagcagcacatgctgtggttttctcagtgaataaaaagacttccttgctcttcttgcagtcatgaactacatgttactgaaacagactagattgaaaagagacattgatgaaaaaaaaaaagagagagacaacaaaacaaaatcacatggggctataattgtttctttgcagtcatggtaactaagttgtctaggcaaaggacactaaataactaaaaccctagtagactcgaggctacttcaagtttgggccaattagtacatatgcattcgaattatttgtacagaatcgaattacaataggtcaatgggtgggccccacacacccgtgctcatcagtcatccctagtgatatacctgctcattaccagaaacgccaatgtgacttaaaaggtatcaataattgataagcttaatcccgtagtcttcaagaaggaattttacttctatattgatattcatattggtgaactacatgttaaattgttattggtgaactacatgttaaattgctaataacttgtataccatgtgtttttgttcttgaaacaaacagcttcatccaggaggtaggctgggatgaagacctggtgaatgagtccttcccttgggtggaggacaagatcgtccagtggcctaagatcgcaccttggcaggctgcactaagggatgggctactccaagcaggtgtatctcctttcaatggctacacatatgaccatgtttctgggaccaaagttggtggcaccatctttgatgagactggctaccgccacacagcagccgacttacttgcagctggagaccctaacaacctaagggtgctgcttcatgctagtgtgaacaggatagtctttaactcgcagagaggtaaataattacacatgtgtggccaaagctcctacaagttgtattatcttctaaaatagagttatatagaattatatgccatgaatagaaagagtaagttcagtaatcacgtaccatatttcagatacaccatttctgatgcagggcaactgaagccaagagcaaccggagttcagttcaccgatgagaatggaggactccaccaggcattcctcaacagcaactgtgatagtgaaatcattgtctctgctggcgcaattggcagcccccagctgctattgctcagtgggattggacccaagaatgaccttaggagccataaaattcctgtagttctccataacaagtatgtgggtaaagggatggctgataaccccatgaactccatattcataccgacgaaaagcccccctcgccagtccctgattgagactgttggaataactgaagctggtgtgttcattgaggccagtagtggttttggccagtcaccagaaagcatccattgccaccatggaatcatgtccgctgaggtatgtcatcaatcttacttgcatcatgagaagctttttgtgcataaaataggtctaaagcagtatcacaaacatcaggaaaaagctgctgcttagatctgcagacttcaaaaaggaaaacagattctaaagtctaaactatcaaaactcacattttgcaacattgcaaacacaacttagaccaattcattaattacaggtgaatatgcatatgcatataatagtatattctaagaaataatacttatctgatttataagtcattgttttatgcttagattttctaggaatcagatctcagaattgaacttcttgtcttggagattaaaaaaaataagtgttgtctacattgcaacaactccaataactgccatcatagtttccattgttgtctcaatttgttccctacttggccttgttggtctaatacatattatattcctatggtacagattggacagctgtccacaattcctccgaaggaaagaagcctggaaaaagcacagaagtatgcaaataccaaacttaatctacccaaagagatattccatggtggttttatcctcgagaagattgatggtccactgtctacgggacatcttgccctgatagacactgatgtcaagaagaaccctgcggttaccttcaactacttcagtcatccacaggatctcactcgttgcgtctatggtatcaagaccattgaacgaatactgaagacaaaccgtttctctgaactgtctgccaacactgatggacattcaatggaaagagtgctcaatatgagtgtgcaggctaatgtgaacttgatacccaagcatacaaatgacacagaatccctagagcaattttgcagggatacagtaataaccatctggcactaccatggtggatgccatgtagggaaggtggttgatcagcaacaccgtgtgcttggagtttcaggcgtccgtgtagtcgatggctcaacattttctagatcaccagggacgaaccctcaagccacggtcatgatgatgggcaggtacataaacacagtaaaaaattaacttctttagtctttacctaatgatattctaactttaaactcttaaagactaaattgcttccctcatatttcatactcagatattttggagtgatgatcctaaggggaagactaggtcgagcagctggagtgtaatcgattcctggacaccagccttttgttatgtgtgacctagagaagaaaaattactaattattgctgggatctagtgtgattcaccgaagaaagacaagctaggagtttcatctgtacccagtaatcatttgtgtcatgtgatattgcagatcaaatggtttattg</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001069531.1 RefSeq:Os09g0363900]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

2014-05-06T16:02:49Z

J9anuary: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
===Function===
Cytochrome c oxidase subunit I (CO1 or MT-CO1) is one of three mitochondrial DNA (mtDNA) encoded subunits (MT-CO1, MT-CO2, MT-CO3) of respiratory complex IV. Complex IV is the third and final enzyme of the electron transport chain of mitochondrial oxidative phosphorylation.

Cytochrome c oxidase is a key enzyme in aerobic metabolism. Proton pumping heme-copper oxidases represent the terminal, energy-transfer enzymes of respiratory chains in prokaryotes and eukaryotes. The CuB-heme a3 (or heme o) binuclear centre, associated with the largest subunit I of cytochrome c and ubiquinol oxidases, is directly involved in the coupling between dioxygen reduction and proton pumping.Some terminal oxidases generate a transmembrane proton gradient across the mitochondrial inner membrane.

The enzyme complex consists of 3-4 subunits up to 13 polypeptides in different species of which only the catalytic subunit I (COI)) is found in all heme-copper respiratory oxidases. The presence of a bimetallic centre (formed by a high-spin heme and copper B) as well as a low-spin heme, both ligated to six conserved histidine residues near the outer side of four transmembrane spans within COI is common to all family members. The enzyme complexes vary in heme and copper composition, substrate type and substrate affinity. The different respiratory oxidases allow the cells to customize their respiratory systems according to a variety of environmental growth conditions.

===Expression===
Please input expression information here.

===Evolution===
It has been suggested that cytochrome c oxidase catalytic subunits evolved from ancient nitric oxide reductases that could reduce both nitrogen and oxygen. MT-CO1 sequence differences are too small to be detected between closely related species, more than 2% sequence divergence has been detected between such organisms. In most seed plants, the rate of evolution of cox1 is very slow.

===Inhibitor===
Cyanide, sulfide, azide, and carbon monoxide they all can inhibite the function of cytochrome c oxidas.

==Labs working on this gene==
Please input related labs here.

==References==
Please input cited references here.

==Structured Information==

{| style="background:#A1A3A6; width:85%;" border="0"
|-style="background:white; color:black" align="center"
! {{table_heading_style}} |'''Gene Name'''
||
'''{{{GeneName}}}'''

|-style="background:white; color:black" align="center"
! {{table_heading_style}} |'''Description'''
||
'''{{{Description}}}'''

|-style="background:white; color:black" align="center"
! {{table_heading_style}} |'''Version'''
||
'''{{{Version}}}'''

|-style="background:white; color:black" align="center"
! {{table_heading_style}} |'''Length'''
||
'''{{{Length}}}'''

|-style="background:white; color:black" align="center"
! {{table_heading_style}} |'''Definition'''
||
'''{{{Definition}}}'''

|-style="background:white; color:black" align="center"
! {{table_heading_style}} |'''Source'''
||
'''{{{Source}}}'''

|-style="background:white; color:black" align="center"
! {{table_heading_style}} |'''Chromosome'''
||
'''{{{Chromosome}}}'''

|-style="background:white; color:black" align="center"
! {{table_heading_style}} |'''Location'''
||
'''{{{AP}}}'''

|-style="background:white; color:black" align="center"
! {{table_heading_style}} |'''Sequence Coding Region'''
||
'''{{{CDS}}}'''

|-style="background:white; color:black" align="center"
! {{table_heading_style}} |'''Genome Context'''
||
{{{GCID}}}

|-style="background:white; color:black" align="center"
! {{table_heading_style}} |'''Gene Structure (RNA Editing)'''
||
{{{GSID}}}

|-style="background:white; color:black"
! {{table_heading_style}} |'''Protein Sequence'''
||
'''{{{AA}}}'''

|-style="background:white; color:black"
! {{table_heading_style}} |'''Gene Sequence'''
||
'''{{{DNA}}}'''

|-style="background:white; color:black" align="center"
! {{table_heading_style}} |'''External Link(s)'''
||
'''{{{Link}}}'''
|}