![[Home Page]](/images/icons/gramene_logo180new.jpg "[Home Page]"){kind=icon}
Gene Home |
Search |
|
Submit |
Help |
Tutorial |
FAQ | Release Notes
Oryza sativa gene "HD6" (GR:0060444) | Species | Oryza sativa (Rice) [ GR_tax:013681 ] | ||||||||
|---|---|---|---|---|---|---|---|---|---|
| Accession | GR:0060444 | ||||||||
| Gene Symbol | HD6 | ||||||||
| Gene Name | Heading date 6 | ||||||||
| Synonyms (7) |
|
||||||||
| E.C. Numbers (0) | |||||||||
| Pathway Reactions (0) | |||||||||
| Chromosome No. | 3 | ||||||||
| Gene Type | CDS (Protein coding) | ||||||||
| Has Phenotype | yes | ||||||||
| Description | Related to flowering, heading date and maturity in rice. The allele from "Kasalath" delays the heading date. | ||||||||
| Curator Comment | A single base substitution introduces a premature termination codon (TAG) at residue position 91 in protein sequence from Nipponbare allele, compared to a lysine codon (AAG) in Kasalath. |
Alleles (2) Germplasm (2) Sequences (9) | Protein |
|
||||||
|---|---|---|---|---|---|---|---|
| Nucleotide (DNA) |
|
Gene-To-Gene Interactions (0)
Gene Interactions (0)
Map Positions (2) | Map Type | Map Set | Name | Map | Position | Ext. Links | |||
|---|---|---|---|---|---|---|---|---|
| Sequence | Gramene Annotated Nipponbare Sequence 2009 | BNL6.32 | Chr. 7 | 798,478-804,187bp | View Comparative Map | |||
|
||||||||
| Map Type | Map Set | Name | Map | Position | Ext. Links | |||
|---|---|---|---|---|---|---|---|---|
| Genetic | JRGP RFLP 2000 | BNL6.32 | 3 | 140.1-140.1cM | View Comparative Map | |||
|
||||||||
Gene Map Positions (2) | Map Position [ View in Marker DB ] | |||||
|---|---|---|---|---|---|
| # | Map Set Name | Linkage Group | Start Position | Stop Position | CMap Feature Acc |
| 1 | JRGP RFLP 2000 | 3 | 140.1 cM | 140.1 cM | jrgp-2000-3-ip14 |
| 2 | Rice japonica MSU6 | Chr. 7 | 798478 bp | 804187 bp | grjp2009a-7-GR:0060444 |
Associated Ontologies (29) | Trait | days to heading (TO:0000137), photoperiod sensitivity (TO:0000229), days to maturity (TO:0000469) |
| Plant Structure | inflorescence meristem (PO:0000230), PO:0006318 (PO:0006318), seed (PO:0009010), portion of meristem tissue (PO:0009013), 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) |
| Molecular Function | sequence-specific DNA binding transcription factor activity (GO:0003700), protein kinase activity (GO:0004672), protein serine/threonine kinase activity (GO:0004674), protein tyrosine kinase activity (GO:0004713), ATP binding (GO:0005524) |
| Biological Process | protein phosphorylation (GO:0006468), biological_process (GO:0008150), photoperiodism (GO:0009648), inflorescence development (GO:0010229) |
| Environment | sodium chloride regimen (EO:0007048), cold temperature regimen (EO:0007174), Magnaporthe grisea (EO:0007226), tissue culture growth media (EO:0007266), continuous dark (no light) regimen (EO:0007270), unknown environment (EO:0007403) |
Associated QTL (0)
Database Cross-References (1) Literature (10) Images (0)
SNPs (22) | Chr | Start | Stop | Exp | Num. SNP Positions | |
|---|---|---|---|---|---|
| chr7 | 798,478 | 804,187 | ~160K SNPs x 20 accessions (McNally 2... | 0 | |
| chr7 | 798,478 | 804,187 | '1536 chip' - 1311 SNPs x 395 rice ac... | 0 | |
| chr7 | 798,478 | 804,187 | Huang X, et al, Nat Genetics 2010 Nov... | 11 | Search for SNPs |
| chr7 | 798,478 | 804,187 | RiceDiversity 44K SNP assay, 34 trait... | 11 | Search for SNPs |
| chr7 | 798,478 | 804,187 | RiceDiversity 44K SNP assay, 34 trait... | 0 |
