Species | Oryza sativa (Rice) [ GR_tax:013681 ] | ||||||||||
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Accession | GR:0060719 | ||||||||||
Gene Symbol | RA | ||||||||||
Gene Name | TRANSCRIPTIONAL ACTIVATOR A | ||||||||||
Synonyms (9) |
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E.C. Numbers (0) | |||||||||||
Pathway Reactions (0) | |||||||||||
Chromosome No. | 4 | ||||||||||
Gene Type | CDS (Protein coding) | ||||||||||
Has Phenotype | yes | ||||||||||
Description | One rice R gene. An active homologue with extensive homology with other R genes. Located at a position on chromosome 4 previously shown to be in synteny with regions of maize chromosomes 2 and 10 that contain the B and R loci, respectively. Ra gene can activate the anthocyanin pathway. | ||||||||||
Curator Comment | LOC_Os04g47080 has been identified as a bHLH transcription factor by bioinformatic studies. |
Map Type | Map Set | Name | Map | Position | Ext. Links | |||
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Sequence | Gramene Annotated Nipponbare Sequence 2009 | BNL6.32 | Chr. 4 | 27,764,248-27,770,504bp | View Comparative Map | |||
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Map Type | Map Set | Name | Map | Position | Ext. Links | |||
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Genetic | Cornell RFLP 2001 | BNL6.32 | 4 | 55.9-71.95cM | View Comparative Map | |||
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Map Position [ View in Marker DB ] | |||||
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# | Map Set Name | Linkage Group | Start Position | Stop Position | CMap Feature Acc |
1 | Cornell RFLP 2001 | 4 | 55.9 cM | 71.95 cM | cu-sl-2001-4-ip7 |
2 | Rice japonica MSU6 | Chr. 4 | 27764248 bp | 27770504 bp | grjp2009a-4-GR:0060719 |
Trait | seed coat color (TO:0000190), endosperm color (TO:0000487) |
Plant Structure | seed coat (PO:0009088), endosperm (PO:0009089) |
Plant Growth and Development Stage | whole plant fruit ripening stage (PO:0007010), whole plant fruit ripening complete stage (PO:0007038), inflorescence emergence stage (PO:0007041), whole plant fruit formation stage (PO:0007042) |
Cereal Plant Growth Stage | 08-dough stage (GRO:0007042), 06-heading stage (GRO:0007044), 09-mature grain stage (GRO:0007045), 07-milk stage (GRO:0007046) |
Cellular Component | mitochondrion (GO:0005739), plastid (GO:0009536) |
Biological Process | flavonoid metabolic process (GO:0009812) |
Chr | Start | Stop | Exp | Num. SNP Positions | |
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chr4 | 27,764,248 | 27,770,504 | ~160K SNPs x 20 accessions (McNally 2... | 0 | |
chr4 | 27,764,248 | 27,770,504 | '1536 chip' - 1311 SNPs x 395 rice ac... | 0 | |
chr4 | 27,764,248 | 27,770,504 | Huang X, et al, Nat Genetics 2010 Nov... | 25 | Search for SNPs |
chr4 | 27,764,248 | 27,770,504 | RiceDiversity 44K SNP assay, 34 trait... | 25 | Search for SNPs |
chr4 | 27,764,248 | 27,770,504 | RiceDiversity 44K SNP assay, 34 trait... | 0 |