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| − | Please input one-sentence summary here.
| + | The rice '''''Os09g0442700''''' was reported as '''''OsDDM1a''''' in 2012 <ref name="ref1" /> by researchers from Japan. |
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| | ==Annotated Information== | | ==Annotated Information== |
| | + | [[File:155-Os03g0722400.png|right|thumb|327px|'''Figure 1.''' ''Expression of OsDDM1 genes during development..<ref name="ref1" />.'']] |
| | + | ===Gene Symbol=== |
| | + | *'''''Os09g0442700''''' '''''<=>''''' '''''OsDDM1a''''' |
| | ===Function=== | | ===Function=== |
| − | The gene was suggested that to silence endogenous loci including those related to retrotransposons in the rice genome.But the roles on transposition of active transposons in the genome remains unknown.
| + | * '''''OsDDM1''''' genes function to silence endogenous loci including those related to retrotransposons in the rice genome, however, their roles on transposition of active transposons in the genome remains unknown. |
| − | There are evidences suggested that the hypomethylation in the antisense of this gene lines is induced by the antisense transgene but not in
| + | * Hypomethylation induced by the antisense '''''OsDDM1''''' disturbs normal development. |
| − | the process of transformation that includes tissue culture for callus induction (Toki 1997).In the antisense of this gene lines, cytosine methylation is severely reduced in the repeated sequences.Reduction in cytosine methylation is more evident in the later generations.
| + | * Transgenic rice lines expressing '''''OsDDM1a''''' cDNA in antisense orientation exhibited the genomic DNA hypomethylation in repeated sequences similar to the pattern observed in Arabidopsis ddm1 mutants. |
| − | Additional details suggest the gene occasional maintenance of the partial methylation state at the single copy locus.
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| | | | |
| | ===Expression=== | | ===Expression=== |
| − | Please input expression information here.
| + | * '''''OsDDM1a''''' and '''''OsDDM1b''''' are expressed during development with slight variations among various tissues, suggesting that there might be functional divergence of these two genes (Fig. 1c). |
| − | | |
| − | ===Evolution===
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| − | Please input evolution information here.
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| − | You can also add sub-section(s) at will.
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| | ==Labs working on this gene== | | ==Labs working on this gene== |
| − | Please input related labs here.
| + | * CREST, Japan Science and Technology Agency,Kawaguchi 332-0012, Japan |
| | + | * Department of Molecular Genetics, National Institute of Agrobiological Sciences, Tsukuba 305-8602, Japan |
| | + | * Department of Plant Science, University of Manitoba,Winnipeg R3T 2N2, Canada |
| | + | * Department of Integrated Genetics, National Institute of Genetics, Mishima 411-0801, Japan |
| | | | |
| | ==References== | | ==References== |
| − | Please input cited references here.
| + | <references> |
| | + | * <ref name="ref1"> |
| | + | Higo H, Tahir M, Takashima K, Miura A, Watanabe K, Tagiri A, Ugaki M, Ishikawa |
| | + | R, Eiguchi M, Kurata N, Sasaki T, Richards E, Takano M, Kishimoto N, Kakutani T, |
| | + | Habu Y. DDM1 (decrease in DNA methylation) genes in rice (Oryza sativa). Mol |
| | + | Genet Genomics. 2012 Oct;287(10):785-92. Epub 2012 Aug 24. PubMed PMID: 22915302. |
| | + | </ref> |
| | + | </references> |
| | | | |
| | ==Structured Information== | | ==Structured Information== |
| − | {{JaponicaGene|
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| − | GeneName = Os09g0442700|
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| − | Description = SNF2-related domain containing protein|
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| − | Version = NM_001069827.2 GI:297609541 GeneID:4347183|
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| − | Length = 5977 bp|
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| − | Definition = Oryza sativa Japonica Group Os09g0442700, complete gene.|
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| − | Source = Oryza sativa Japonica Group
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| − | ORGANISM Oryza sativa Japonica Group
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| − | Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
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| − | Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
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| − | clade; Ehrhartoideae; Oryzeae; Oryza.
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| − | |
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| − | Chromosome = [[:category:Japonica Chromosome 9|Chromosome 9]]|
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| − | AP = Chromosome 9:17115362..17121338|
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| − | CDS = 17118477..17118737|
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| − | GCID = <gbrowseImage1>
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| − | name=NC_008402:17115362..17121338
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| − | source=RiceChromosome09
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| − | preset=GeneLocation
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| − | </gbrowseImage1>|
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| − | GSID = <gbrowseImage2>
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| − | name=NC_008402:17115362..17121338
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| − | source=RiceChromosome09
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| − | preset=GeneLocation
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| − | </gbrowseImage2>|
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| − | CDNA = <cdnaseq>ttatcatccttctggttttctgttttagttttgtatttacatgtttacttcgatggctttttccaggggcatcggctaaagaattccaagtgtttattattaagggagctaaagcgcctgccaatggataataagctccttttgactggaactcctcttcagaataatctagcagaactgtggtccctgctgaacttcattttgcctgatatattctcttcacaccaagaatttgagtcatggtattattcattttgctga</cdnaseq>|
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| − | AA = <aaseq>LSSFWFSVLVLYLHVYFDGFFQGHRLKNSKCLLLRELKRLPMDN KLLLTGTPLQNNLAELWSLLNFILPDIFSSHQEFESWYYSFC</aaseq>|
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| − | DNA = <dnaseqindica>2602..2862#gttcaaaagaaaaacctcccatctcgtctcccccctcctccgcctccgccgcgccggccgccgatctccatctcctcgcgagcagggagcgcggcaggggcgccgtcgtcctgctgcttcccgccacaatcctggctggtgagcattccgcatcctctctttttctctcgcccactttttttctcgatcttttcttttcttggagtgtcgagttcacgtgcgttaaaccctagcttctctagcgtttcctattgatttgccttaacattaatacgagtactaacggcttgtttttgtttgttctccaaaaagtttggaggggcggtttaagaaggttcatctgacccccacaatgtcggaagttagatccgtccctgggatgaaggtggaagcatccccggccgcggccgccgctgccaccgtggattccccgacatccgttctggaggatgatgaggtgatttatttgtgaatgcctttttttttttcagatatctctatttctgttttatgcttccgcatttcgggttttttttggttgacgttgagttgttgttgttagaagatttctgaatgtaagaatggggatgtcttggataccaccgaggcgattaagcaagaggaggatcatctcgatgtgcttattgaggagaaagttgatggttttgtggatgcaagttcttccctgaatgtggaacctgcggctaacaacagtgatttgtcacctctcactgtgccggtgaaggaagaaggtcagttattggagcctgtcaaggaggaaaaagctgatgattttgtggatgcagttccatctctaccgattgaccttgaggccaagaatggtgatgcatccctcatcactgatgcgatgaaggaggaggaagagaagttgcacgacgcccgggttaaggctgaagaagaagaggtagcacggaagagggaagaggctgcaagacttgcttttgatccaaatgcacgttttaacaagttggacgagctactatcacagacacaactctattcagaatttctacttgagaagatggaaacgatcgctgatgtatgtattgtttctccacgcgccacatgactctttttgcttcttcctatgctttatttgatttttctgttgatggttgtgctgttggctaaggtggagggcgtccaaactcatgctgaagaggagccagtagaagagaagaagaatgggcgtggcagaaagaggaaagctacttctgcaccaaagtacaatgatgtgagttctagcttcatacatggagtaatttggtttcctatattctaaattaatgggatatgcttatgttgaccttgctcatctggatttcaaatagtactaatgttgccagtttttcaatatttactaaatagctttccacctgtagtacattgttagaaaatcataattagaaggggtgtttaaagactcgccataacacatttgcaaccgccttcttctggtaccctgatatttttaggggtttgaatgtggggcacaaatttgtggcaaatgttagcgattagtatatcaatcaaataggctcttttgactgttagatagtgaaccaggaggttagagaagcaagaaaataccagagtaaaatgctcaatactagtgagtgtcagaggaaaatcaccttatatatgttattactatcttgctaattagaggttgtttattcatgaatgctgaagatagagggacaccgtatgaaggaaaaaagtttaaaaaccattaacttttgcttgtgccttatatttttgggcttgtttcaaatttctctagaaccatgcacacttattcagaatttcagatcctttcgtaggatcaattatattatttaagtgaatagcttgctcagtgttctgtatgaatgtggcaacttgttttatacatagatcaaaatttcaagcaaaccatttcatttctaaccgacaaaataaaatattgttcagaaaaaagccaagaaagcagtggcagtcatgcttacaagatctcatgaagattgctcacctgaggattgtactctcacagaagaagaaaggtgggaaaaagagcaagccagacttgttcctctaatgactggcgggaagttgaagtcctaccagataaagggtgttaagtggttaatatcactttggcagaatgggcttaatgggatattggctgatcaaatgggccttgggaaaacaatacagactatcggttttcttgcccatctcaaggggaagggtcttgatggtccatacctgataattgctcccctatccactctctcaaactgggtgaacgagatctcaaggtaacatatccatattattctttcattatccttgattgatattcttaagtgaagctgcttgctttcaggtttgttccatctatgactggtctgatttatcatggggacaaagcagcccgggcagagataaggagaaaattcatgcccaaaaccactggcccagattttccattaatcgtaacttcctatgagatggctatgtcagatgcaaagcatcttgctcactataagtggaagtatgttattgtggatgaggtacatggagaaaccttgcaattagttatcatccttctggttttctgttttagttttgtatttacatgtttacttcgatggctttttccaggggcatcggctaaagaattccaagtgtttattattaagggagctaaagcgcctgccaatggataataagctccttttgactggaactcctcttcagaataatctagcagaactgtggtccctgctgaacttcattttgcctgatatattctcttcacaccaagaatttgagtcatggtattattcattttgctgataatagtaccaccctttccccatatataccttcactagtgcggtttgtgcttttatagtctcacgtctcagcactgaaatacaaatatgatagtaactgaagattttcataccatgcaatcattcctataaccatcttaacctttccggcaaataattgttagtctcacgtttgaatcatttcctgactgtttattgtcaacttgttcatttgtgtatgcattgagcagagcagatattctttttctcaagtcgagacatttgtcagcatctgtctgggtccttgagggctagcaatttggtcaaaacaatgtaaaagaacctcttaaactgcttaacagcaatttcaattatattcccatcaactaaccctgtctatatatatgttattccattagtttgttgctactcttaagacattgctttaatttttctcattgcctttacttatgaagtgtaaagttgaatgccctatgtgttgttgtgagtatgcatattattttgtatgtggtgtctgctaatgtgtcttttgaatattagcagaaatttatgctgtacacctactgatttctatggtgtactgacatgatattttacttttgcgtctaccattgactatttagatggattttgctgcgattaacatgtttgatcattctttgctacaaagaatatactaatgcattttaggtaccctatgcattaaaattgatttgttttgcctgcattggccttacgagtgccatacaggtttgacttttctgcgaaaggaggtgaagaagaacaagaggatagtgaagagaagagaaaagtcgatgttgtttcaaagcttcatgccatattgcgcccgttccttctaaggcggatgaaggaggatgtagagcatatgcttccacgaaagaaagagataatcatttacgctaacatgactgaccatcagaaacaaatccagaatcacttggttgaacaaacatttgatcaatacctgcatgaaaaatcagaaattggtatggatgcttgtacacctagtctcctacacacacattcctgtaggcttgacaagttaatctgacaagtgctgaggaatattgcagttctgcggaaacctggcattaaggcaaagctaaataatctgttaattcagttgaggaaaaattgcaaccatcctgatcttctggagtctgcgtatgactcatcaggttgttccacattggacatctgttatcaattgattcacatgctcgtttcctaacacttatttgctttattgtctttctgtaggtctgtatccacctgttgagaagctcttggaacagtgcggcaaatttcagctcttgaacagattgctaagtttgctgcttgcacggaagcacaaggtatattgttctctcctattctgtttaattcagggattacattaatgcaaatgctagctcgaactctttaaggaaaaaaactagacctcaaccggtattttgtgtaggttctaatattttcacagtggacaaaagttttggacattatcgagtactacttggaaacaaaaggccttcaggtttgccgaattgatgggagtgttaagttggaagagaggaggaggcaggtaaagcaggctgtgccagtgcattactgattactacttggcgtgtaaagttctagacgcatatacgttgactatactatcctaaaatacaattaggattctcatttttcgccatgttaccttttaacatccatttttagtctaatactgttctcaccattttgtgcactactcttgcagatagcagaatttaatgacttgaacagcagcatgaatatctttattctaagcacacgggctggcgggcttggtatcaatcttacttcagcggatacctgtatcctatatgatagtgactgggtaattccctattgatattattgtatttcttcaggctaaatattcatattacagcaagaacattacaagatgtttttgcacgccgcctgcctgtttgaatgggtggaatgtaggcacgtagcgacttcttcgctcctgcctactgtaactttacttaaaattagctaactgcctgtttgaatgggtggaatgtaggcatgtagtgacttcttcgctcctgcctactgtaactttactttctattagctggtttagttgtgatttgttaaacttttgccatcattctgcagaatcctcagatggatttgcaggccatggatcgatgtcaccggattggtcaaacacgcccagttcacgtctatcggttagcaacatcacattctgttgaggtatgttagatgatcctttatcttcagacgtcggctaaacctgttggatagttgctcatcttaatgatgttgcagggccggatcatcaagaaagcatttggcaagttgaggttggagcatgtggtgatcgggaagggtcagtttgaacaagacagagccaagcctaatgccctagatgtaatgtttctttgtttggactatttttgtacactgaaagaatgtcgacaccacgaaaatcctctctgacagtgacatttcttatgattatgcaggaagcggagttgctggcgctgctcagggacgagcagggcgacgaggaccggatgatccagacggacatcagcgatgaggacctcctgaaggtgatggaccggagcgaccttacaggccctcctgccaatgccgacgccgcccctctcgtccccctgaagggacccggctgggaggtggtggtgccgacgaagagcggcggcggaatgctgacgtcgctcaccagttagcttcttcattcgctcgctgttgccgtctatgcatgccgaccgggtggggtgcctacttcacctgtgctgatgagacgatgcttttgtgatatacaatatcccccaagtaattgactgactgggcgttgcacttgcacctactgactaggagtaggaggtgatgtagtagtgtgcactgttataggctcagctgctggaattcattttgcaaggccagaagccttttccagcaagccgtgcaaggaagtggtttttgtcatgatacaattgtctacccagcttatgtgtaagcaagctatgcaatgcaatgctataaatagtttc</dnaseqindica>|
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| − | Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001069827.2 RefSeq:Os09g0442700]|
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| − | }}
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| | [[Category:Genes]] | | [[Category:Genes]] |
| | [[Category:Japonica mRNA]] | | [[Category:Japonica mRNA]] |
