QTL Accession ID | CQAT1 |
---|---|
Species | Oryza sativa (Rice) [ GR_tax:013681 ] |
Trait Symbol | SUBTL |
Trait Name | submergence tolerance |
Published Symbol | Sub1 |
Trait Synonym(s) | |
Trait Category | Abiotic stress |
Chromosome | 9 |
Comments | The F3 family means for submergence score ranged from 1.6-8.9 compared to the 1.5 and 8.4 for IR40931-26 and PI543851 respectively (LSD0.5=2.4, CV=29.8%). The distribution was more or less continuous and was highly skewed towards the susceptible parent PI543851. The correlation between plant height before submergence and level of tolerance was significant but low (r=0.32, df=167). The tolerant parent IR40931-26 was shorter than the susceptible parent PI543851 (9.2 Vs 11 cm). |
Map Type | Map Set | Name | Map | Position | Ext. Links | |||
---|---|---|---|---|---|---|---|---|
Sequence | Gramene Annotated Nipponbare Sequence 2009 | BNL6.32 | Chr. 9 | 3,794,219-7,223,222 bp | View Comparative Map | |||
|
Map Type | Map Set | Name | Map | Position | Ext. Links | |||
---|---|---|---|---|---|---|---|---|
QTL | UCD IR40931/PI543851 QTL 1996 | BNL6.32 | 9 | 20-30 cM | View Comparative Map | |||
|
Name | Chromosome | Start | Stop |
---|---|---|---|
CQAT1 | 9 | 20 | 30 |
Direction | Name | Type | Species | Assoc. Type |
---|---|---|---|---|
To | C1232 | RFLP | Oryza sativa | qtl_marker |
To | Sub1 | Gene | Oryza sativa | ISS |
To | RZ698 | RFLP | Oryza sativa | qtl_marker |
To | RG553 | RFLP | Oryza sativa | qtl_marker |
Species | Accession | Name | Evidence |
---|---|---|---|
Oryza sativa | GR:0060943 | SUBMERGENCE TOLERANCE 1 | Xu-K et al., 1996 (IAGP) |
Term Type | Term | Evidence |
---|---|---|
Trait Ontology | (TO:0000524) | Xu-K et al., 1996 (IAGP) |
Plant Structure | (PO:0000003) | Gramene curators, 2007 (IC) |
(PO:0009011) | Gramene curators, 2007 (IC) | |
Plant Growth and Development Stage | (PO:0007033) | Gramene curators, 2007 (IC) |
(PO:0009012) | Gramene curators, 2007 (IC) | |
Growth Stage | (GRO:0007001) | Gramene curators, 2007 (IC) |
Environment | (EO:0007164) | Gramene curators, 2007 (IC) |
Species Ontology | (GR_tax:013681) | Xu-K et al., 1996 (SM) |
Chr | Start | Stop | Exp | Num. SNP Positions | |
---|---|---|---|---|---|
chr9 | 3,794,219 | 7,223,222 | ~160K SNPs x 20 accessions (McNally 2... | 1,254 | Search for SNPs |
chr9 | 3,794,219 | 7,223,222 | '1536 chip' - 1311 SNPs x 395 rice ac... | 15 | Search for SNPs |
chr9 | 3,794,219 | 7,223,222 | Huang X, et al, Nat Genetics 2010 Nov... | 7,177 | Search for SNPs |
chr9 | 3,794,219 | 7,223,222 | RiceDiversity 44K SNP assay, 34 trait... | 7,177 | Search for SNPs |
chr9 | 3,794,219 | 7,223,222 | RiceDiversity 44K SNP assay, 34 trait... | 322 | Search for SNPs |