Os09g0442700
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Contents
Annotated Information
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. There are evidences suggested that the hypomethylation in the antisense of this gene lines is induced by the antisense transgene but not in 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. Additional details suggest the gene occasional maintenance of the partial methylation state at the single copy locus.
Expression
They observed dwarf phenotypes in the antisense gene lines(Hiromi Higo et al.2012)
The figure shows A dwarf phenotype appeared in a later generation of line 17. Right wild type; left line 17 (the fifth generation)
Evolution
Relationship among DDM1-like proteins: a. An alignment
(ClustalX) of the C-terminal portion of the deduced amino acid
sequences of OsDDM1a, OsDDM1b, Zea mays CHR101 ([www.
chromdb.org]), Zea mays CHR106 ([www.chromdb.org]), Arabidopsis
thaliana DDM1 (AAD28303), and Mus musculus LSH (NP 032260).
Genomic Southern analysis and database search using this EST revealed that the genome of rice (Oryza sativa var. Nipponbare) contains two sequences similar to DDM1 (Fig.a).
Labs working on this gene
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References
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Structured Information
| Gene Name |
Os09g0442700 |
|---|---|
| Description |
SNF2-related domain containing protein |
| Version |
NM_001069827.2 GI:297609541 GeneID:4347183 |
| Length |
5977 bp |
| Definition |
Oryza sativa Japonica Group Os09g0442700, 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 | |
| Location |
Chromosome 9:17115362..17121338 |
| Sequence Coding Region |
17118477..17118737 |
| Expression | |
| Genome Context |
<gbrowseImage1> name=NC_008402:17115362..17121338 source=RiceChromosome09 preset=GeneLocation </gbrowseImage1> |
| Gene Structure |
<gbrowseImage2> name=NC_008402:17115362..17121338 source=RiceChromosome09 preset=GeneLocation </gbrowseImage2> |
| Coding Sequence |
<cdnaseq>ttatcatccttctggttttctgttttagttttgtatttacatgtttacttcgatggctttttccaggggcatcggctaaagaattccaagtgtttattattaagggagctaaagcgcctgccaatggataataagctccttttgactggaactcctcttcagaataatctagcagaactgtggtccctgctgaacttcattttgcctgatatattctcttcacaccaagaatttgagtcatggtattattcattttgctga</cdnaseq> |
| Protein Sequence |
<aaseq>LSSFWFSVLVLYLHVYFDGFFQGHRLKNSKCLLLRELKRLPMDN KLLLTGTPLQNNLAELWSLLNFILPDIFSSHQEFESWYYSFC</aaseq> |
| Gene Sequence |
<dnaseqindica>2602..2862#gttcaaaagaaaaacctcccatctcgtctcccccctcctccgcctccgccgcgccggccgccgatctccatctcctcgcgagcagggagcgcggcaggggcgccgtcgtcctgctgcttcccgccacaatcctggctggtgagcattccgcatcctctctttttctctcgcccactttttttctcgatcttttcttttcttggagtgtcgagttcacgtgcgttaaaccctagcttctctagcgtttcctattgatttgccttaacattaatacgagtactaacggcttgtttttgtttgttctccaaaaagtttggaggggcggtttaagaaggttcatctgacccccacaatgtcggaagttagatccgtccctgggatgaaggtggaagcatccccggccgcggccgccgctgccaccgtggattccccgacatccgttctggaggatgatgaggtgatttatttgtgaatgcctttttttttttcagatatctctatttctgttttatgcttccgcatttcgggttttttttggttgacgttgagttgttgttgttagaagatttctgaatgtaagaatggggatgtcttggataccaccgaggcgattaagcaagaggaggatcatctcgatgtgcttattgaggagaaagttgatggttttgtggatgcaagttcttccctgaatgtggaacctgcggctaacaacagtgatttgtcacctctcactgtgccggtgaaggaagaaggtcagttattggagcctgtcaaggaggaaaaagctgatgattttgtggatgcagttccatctctaccgattgaccttgaggccaagaatggtgatgcatccctcatcactgatgcgatgaaggaggaggaagagaagttgcacgacgcccgggttaaggctgaagaagaagaggtagcacggaagagggaagaggctgcaagacttgcttttgatccaaatgcacgttttaacaagttggacgagctactatcacagacacaactctattcagaatttctacttgagaagatggaaacgatcgctgatgtatgtattgtttctccacgcgccacatgactctttttgcttcttcctatgctttatttgatttttctgttgatggttgtgctgttggctaaggtggagggcgtccaaactcatgctgaagaggagccagtagaagagaagaagaatgggcgtggcagaaagaggaaagctacttctgcaccaaagtacaatgatgtgagttctagcttcatacatggagtaatttggtttcctatattctaaattaatgggatatgcttatgttgaccttgctcatctggatttcaaatagtactaatgttgccagtttttcaatatttactaaatagctttccacctgtagtacattgttagaaaatcataattagaaggggtgtttaaagactcgccataacacatttgcaaccgccttcttctggtaccctgatatttttaggggtttgaatgtggggcacaaatttgtggcaaatgttagcgattagtatatcaatcaaataggctcttttgactgttagatagtgaaccaggaggttagagaagcaagaaaataccagagtaaaatgctcaatactagtgagtgtcagaggaaaatcaccttatatatgttattactatcttgctaattagaggttgtttattcatgaatgctgaagatagagggacaccgtatgaaggaaaaaagtttaaaaaccattaacttttgcttgtgccttatatttttgggcttgtttcaaatttctctagaaccatgcacacttattcagaatttcagatcctttcgtaggatcaattatattatttaagtgaatagcttgctcagtgttctgtatgaatgtggcaacttgttttatacatagatcaaaatttcaagcaaaccatttcatttctaaccgacaaaataaaatattgttcagaaaaaagccaagaaagcagtggcagtcatgcttacaagatctcatgaagattgctcacctgaggattgtactctcacagaagaagaaaggtgggaaaaagagcaagccagacttgttcctctaatgactggcgggaagttgaagtcctaccagataaagggtgttaagtggttaatatcactttggcagaatgggcttaatgggatattggctgatcaaatgggccttgggaaaacaatacagactatcggttttcttgcccatctcaaggggaagggtcttgatggtccatacctgataattgctcccctatccactctctcaaactgggtgaacgagatctcaaggtaacatatccatattattctttcattatccttgattgatattcttaagtgaagctgcttgctttcaggtttgttccatctatgactggtctgatttatcatggggacaaagcagcccgggcagagataaggagaaaattcatgcccaaaaccactggcccagattttccattaatcgtaacttcctatgagatggctatgtcagatgcaaagcatcttgctcactataagtggaagtatgttattgtggatgaggtacatggagaaaccttgcaattagttatcatccttctggttttctgttttagttttgtatttacatgtttacttcgatggctttttccaggggcatcggctaaagaattccaagtgtttattattaagggagctaaagcgcctgccaatggataataagctccttttgactggaactcctcttcagaataatctagcagaactgtggtccctgctgaacttcattttgcctgatatattctcttcacaccaagaatttgagtcatggtattattcattttgctgataatagtaccaccctttccccatatataccttcactagtgcggtttgtgcttttatagtctcacgtctcagcactgaaatacaaatatgatagtaactgaagattttcataccatgcaatcattcctataaccatcttaacctttccggcaaataattgttagtctcacgtttgaatcatttcctgactgtttattgtcaacttgttcatttgtgtatgcattgagcagagcagatattctttttctcaagtcgagacatttgtcagcatctgtctgggtccttgagggctagcaatttggtcaaaacaatgtaaaagaacctcttaaactgcttaacagcaatttcaattatattcccatcaactaaccctgtctatatatatgttattccattagtttgttgctactcttaagacattgctttaatttttctcattgcctttacttatgaagtgtaaagttgaatgccctatgtgttgttgtgagtatgcatattattttgtatgtggtgtctgctaatgtgtcttttgaatattagcagaaatttatgctgtacacctactgatttctatggtgtactgacatgatattttacttttgcgtctaccattgactatttagatggattttgctgcgattaacatgtttgatcattctttgctacaaagaatatactaatgcattttaggtaccctatgcattaaaattgatttgttttgcctgcattggccttacgagtgccatacaggtttgacttttctgcgaaaggaggtgaagaagaacaagaggatagtgaagagaagagaaaagtcgatgttgtttcaaagcttcatgccatattgcgcccgttccttctaaggcggatgaaggaggatgtagagcatatgcttccacgaaagaaagagataatcatttacgctaacatgactgaccatcagaaacaaatccagaatcacttggttgaacaaacatttgatcaatacctgcatgaaaaatcagaaattggtatggatgcttgtacacctagtctcctacacacacattcctgtaggcttgacaagttaatctgacaagtgctgaggaatattgcagttctgcggaaacctggcattaaggcaaagctaaataatctgttaattcagttgaggaaaaattgcaaccatcctgatcttctggagtctgcgtatgactcatcaggttgttccacattggacatctgttatcaattgattcacatgctcgtttcctaacacttatttgctttattgtctttctgtaggtctgtatccacctgttgagaagctcttggaacagtgcggcaaatttcagctcttgaacagattgctaagtttgctgcttgcacggaagcacaaggtatattgttctctcctattctgtttaattcagggattacattaatgcaaatgctagctcgaactctttaaggaaaaaaactagacctcaaccggtattttgtgtaggttctaatattttcacagtggacaaaagttttggacattatcgagtactacttggaaacaaaaggccttcaggtttgccgaattgatgggagtgttaagttggaagagaggaggaggcaggtaaagcaggctgtgccagtgcattactgattactacttggcgtgtaaagttctagacgcatatacgttgactatactatcctaaaatacaattaggattctcatttttcgccatgttaccttttaacatccatttttagtctaatactgttctcaccattttgtgcactactcttgcagatagcagaatttaatgacttgaacagcagcatgaatatctttattctaagcacacgggctggcgggcttggtatcaatcttacttcagcggatacctgtatcctatatgatagtgactgggtaattccctattgatattattgtatttcttcaggctaaatattcatattacagcaagaacattacaagatgtttttgcacgccgcctgcctgtttgaatgggtggaatgtaggcacgtagcgacttcttcgctcctgcctactgtaactttacttaaaattagctaactgcctgtttgaatgggtggaatgtaggcatgtagtgacttcttcgctcctgcctactgtaactttactttctattagctggtttagttgtgatttgttaaacttttgccatcattctgcagaatcctcagatggatttgcaggccatggatcgatgtcaccggattggtcaaacacgcccagttcacgtctatcggttagcaacatcacattctgttgaggtatgttagatgatcctttatcttcagacgtcggctaaacctgttggatagttgctcatcttaatgatgttgcagggccggatcatcaagaaagcatttggcaagttgaggttggagcatgtggtgatcgggaagggtcagtttgaacaagacagagccaagcctaatgccctagatgtaatgtttctttgtttggactatttttgtacactgaaagaatgtcgacaccacgaaaatcctctctgacagtgacatttcttatgattatgcaggaagcggagttgctggcgctgctcagggacgagcagggcgacgaggaccggatgatccagacggacatcagcgatgaggacctcctgaaggtgatggaccggagcgaccttacaggccctcctgccaatgccgacgccgcccctctcgtccccctgaagggacccggctgggaggtggtggtgccgacgaagagcggcggcggaatgctgacgtcgctcaccagttagcttcttcattcgctcgctgttgccgtctatgcatgccgaccgggtggggtgcctacttcacctgtgctgatgagacgatgcttttgtgatatacaatatcccccaagtaattgactgactgggcgttgcacttgcacctactgactaggagtaggaggtgatgtagtagtgtgcactgttataggctcagctgctggaattcattttgcaaggccagaagccttttccagcaagccgtgcaaggaagtggtttttgtcatgatacaattgtctacccagcttatgtgtaagcaagctatgcaatgcaatgctataaatagtttc</dnaseqindica> 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