Species | Oryza sativa (Rice) [ GR_tax:013681 ] | ||||||||||||||||
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Accession | GR:0060860 | ||||||||||||||||
Gene Symbol | SE1 | ||||||||||||||||
Gene Name | PHOTOSENSITIVITY 1 | ||||||||||||||||
Synonyms (13) |
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E.C. Numbers (0) | |||||||||||||||||
Pathway Reactions (0) | |||||||||||||||||
Chromosome No. | 6 | ||||||||||||||||
Gene Type | CDS (Protein coding) | ||||||||||||||||
Has Phenotype | yes | ||||||||||||||||
Description | Photoperiod sensitivity. Related to heading date and maturity in rice. Strong photoperiodic sensitivity is dominant over insensitivity. | ||||||||||||||||
Curator Comment | Hd1 is an ortholog of CONSTANS gene (At5g15840) from Arabidopsis and encodes a protein with a zinc finger domain. The major gene controlling photoperiodic sensitivity, Se1, is allelic to Hd1. The same amount of Hd1 mRNA detected under both short-day (SD) and long-day (LD) conditions suggests that the gene is bifunctional under both conditions, promoting heading under SD conditions and inhibiting it under LD conditions. As compared to Arabidopsis, rice is a short-day plant and its heading (inflorescence development) is promoted by short photoperiods. |
Map Type | Map Set | Name | Map | Position | Ext. Links | |||
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Sequence | Gramene Annotated Nipponbare Sequence 2009 | BNL6.32 | Chr. 6 | 9,335,360-9,337,644bp | View Comparative Map | |||
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Map Type | Map Set | Name | Map | Position | Ext. Links | |||
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Genetic | Hokkaido Morphological 2000 | BNL6.32 | 6 | 67-67cM | View Comparative Map | |||
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JRGP RFLP 2000 | BNL6.32 | 6 | 54.3-54.9cM | 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 | JRGP RFLP 2000 | 6 | 54.3 cM | 54.9 cM | jrgp-2000-6-ip21 |
2 | Hokkaido Morphological 2000 | 6 | 67 cM | 67 cM | morph-2000-6-20 |
3 | Rice japonica MSU6 | Chr. 6 | 9335360 bp | 9337644 bp | grjp2009a-6-GR:0060860 |
Trait | days to heading (TO:0000137), photoperiod sensitivity (TO:0000229), days to maturity (TO:0000469) |
Plant Structure | PO:0006318 (PO:0006318), seed (PO:0009010), portion of meristem tissue (PO:0009013), vascular leaf (PO:0009025), inflorescence (PO:0009049) |
Plant Growth and Development Stage | whole plant fruit ripening complete stage (PO:0007038), inflorescence emergence stage (PO:0007041), stem elongation stage (PO:0007089) |
Cereal Plant Growth Stage | 06-heading stage (GRO:0007044), 09-mature grain stage (GRO:0007045), 04-stem elongation stage (GRO:0007048) |
Cellular Component | nucleus (GO:0005634) |
Molecular Function | DNA binding (GO:0003677), sequence-specific DNA binding transcription factor activity (GO:0003700), zinc ion binding (GO:0008270) |
Biological Process | biological_process (GO:0008150), photoperiodism (GO:0009648), inflorescence development (GO:0010229), long-day photoperiodism (GO:0048571), short-day photoperiodism (GO:0048572) |
Environment | unknown environment (EO:0007403) |
Species | Accession | Trait Symbol | Trait Name | Evidence |
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Oryza sativa | CQAK1 | DTHD | days to heading | Lin-H-X. et al., 2000 (IAGP) |
Oryza sativa | CQAK3 | DTHD | days to heading | Lin-H-X. et al., 2000 (IAGP) |
Oryza sativa | CQAK13 | DTHD | days to heading | Yano-M et al., 2000 (IAGP) Lin-H-X. et al., 2000 (IAGP) |
Chr | Start | Stop | Exp | Num. SNP Positions | |
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chr6 | 9,335,360 | 9,337,644 | ~160K SNPs x 20 accessions (McNally 2... | 7 | Search for SNPs |
chr6 | 9,335,360 | 9,337,644 | '1536 chip' - 1311 SNPs x 395 rice ac... | 0 | |
chr6 | 9,335,360 | 9,337,644 | Huang X, et al, Nat Genetics 2010 Nov... | 6 | Search for SNPs |
chr6 | 9,335,360 | 9,337,644 | RiceDiversity 44K SNP assay, 34 trait... | 6 | Search for SNPs |
chr6 | 9,335,360 | 9,337,644 | RiceDiversity 44K SNP assay, 34 trait... | 0 |