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Oryza sativa QTL "EQC0013" (seed shattering)
| QTL Accession ID | EQC0013 | ||||
|---|---|---|---|---|---|
| Species | Oryza sativa (Rice) [ GR_tax:013681 ] | ||||
| Trait Symbol | SDSH | ||||
| Trait Name | seed shattering | ||||
| Published Symbol | sh4. | ||||
| Trait Synonym(s) |
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| Trait Category | Anatomy | ||||
| Chromosome | 4 | ||||
| Comments | The QTL for seed shattering sh4.1 on chromosome 4 explains 69.0% phenotypic variance in the F2 population derived from cultivated Oryza sativa and the annual wild species O. nivara. The gene action is dominant. |
Map Positions (2)
| Map Type | Map Set | Name | Map | Position | Ext. Links | |||
|---|---|---|---|---|---|---|---|---|
| Sequence | Gramene Annotated Nipponbare Sequence 2009 | BNL6.32 | Chr. 4 | 34,989,558-34,989,777 bp | View Comparative Map | |||
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| Map Type | Map Set | Name | Map | Position | Ext. Links | |||
|---|---|---|---|---|---|---|---|---|
| QTL | USMSU O sativa CL16/O.nivara 80470 SSR QTL 2006 | BNL6.32 | 4 | 123-128.9 cM | View Comparative Map | |||
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QTL DB Map Position (1)
| Name | Chromosome | Start | Stop |
|---|---|---|---|
| EQC0013 | 4 | 123 | 128.9 |
Associated Markers (3)
| Direction | Name | Type | Species | Assoc. Type |
|---|---|---|---|---|
| To | RC4-123 | SSR | Oryza sativa | qtl_marker |
| To | RM280 | SSR | Oryza sativa Indica Group | qtl_marker |
| To | MRG4506 | SSR | Oryza sativa | qtl_marker |
Associated Genes (0)
Associated Ontologies (6)
| Term Type | Term | Evidence |
|---|---|---|
| Trait Ontology | (TO:0000473) | Li-C et al., 2006 (IAGP) |
| Plant Structure | (PO:0009010 ) | Li-C et al., 2006 (SM) |
| Plant Growth and Development Stage | (PO:0007038 ) | Li-C et al., 2006 (SM) |
| Growth Stage | (GRO:0007045 ) | Li-C et al., 2006 (SM) |
| Environment | (EO:0007403) | Gramene curators, 2007 (IC) |
| Species Ontology | (GR_tax:013681) | Li-C et al., 2006 (SM) |
Database Cross-References (1)
SNPs (4)
| Chr | Start | Stop | Exp | Num. SNP Positions | |
|---|---|---|---|---|---|
| chr4 | 34,989,558 | 34,989,777 | ~160K SNPs x 20 accessions (McNally 2... | 0 | |
| chr4 | 34,989,558 | 34,989,777 | '1536 chip' - 1311 SNPs x 395 rice ac... | 0 | |
| chr4 | 34,989,558 | 34,989,777 | Huang X, et al, Nat Genetics 2010 Nov... | 2 | Search for SNPs |
| chr4 | 34,989,558 | 34,989,777 | RiceDiversity 44K SNP assay, 34 trait... | 2 | Search for SNPs |
| chr4 | 34,989,558 | 34,989,777 | RiceDiversity 44K SNP assay, 34 trait... | 0 |
