QTL Accession ID | CQE45 |
---|---|
Species | Oryza sativa (Rice) [ GR_tax:013681 ] |
Trait Symbol | CBCN |
Trait Name | carbon content |
Published Symbol | |
Trait Synonym(s) | |
Trait Category | Biochemical |
Chromosome | 6 |
Comments | Carbon content trait assay is for carbon isotope analysis. Grains were oven-dried at 80C for 2 days, and isotope [13C] values were determined with a mass spectrometer (Finnegan MAT, San Jose, Calif.). Assay is an indicator of intercellular carbon di-oxide concentration. Phenotypic effect contributed by Kasalath allele. The means of ten replications per line were used in the data analysis. Chromosomal locations of putative QTLs were determined by single-factor analysis (one-way ANOVA) with the general linear model procedure of QGENE. Two-way ANOVAs for epistatic interaction were also carried out with QGENE at Pd0.01 threshold. The tests were done only with marker loci linked to QTLs with a single-factor P of d0.01 to reduce the likelihood of committing a type-I error. |
Map Type | Map Set | Name | Map | Position | Ext. Links | |||
---|---|---|---|---|---|---|---|---|
Sequence | Gramene Annotated Nipponbare Sequence 2009 | BNL6.32 | Chr. 6 | 6,822,035-11,681,093 bp | View Comparative Map | |||
|
Map Type | Map Set | Name | Map | Position | Ext. Links | |||
---|---|---|---|---|---|---|---|---|
QTL | JRGP Nip/Kas F2 QTL 2000 | BNL6.32 | 6 | 38.3-63.2 cM | View Comparative Map | |||
|
Name | Chromosome | Start | Stop |
---|---|---|---|
CQE45 | 6 | 38.3 | 63.2 |
Direction | Name | Type | Species | Assoc. Type |
---|---|---|---|---|
To | C1478 | RFLP | Oryza sativa | qtl_marker |
To | C235 | RFLP | Oryza sativa | qtl_marker |
To | C60176S | RFLP | Oryza sativa | qtl_marker |
To | PgibA | RFLP | Oryza sativa | qtl_marker |
To | S913 | RFLP | Oryza sativa | qtl_marker |
To | S11149 | RFLP | Oryza sativa | qtl_marker |
To | R2171 | RFLP | Oryza sativa | qtl_marker |
To | Y4836L | RFLP | Oryza sativa | qtl_marker |
To | R1679 | RFLP | Oryza sativa | qtl_marker |
To | E231 | RFLP | Oryza sativa | qtl_marker |
To | NH84 | RFLP | Oryza sativa | qtl_marker |
To | Y2668L | RFLP | Oryza sativa | qtl_marker |
To | S2539 | RFLP | Oryza sativa | qtl_marker |
To | Y2145L | RFLP | Oryza sativa | qtl_marker |
To | R10069S | RFLP | Oryza sativa | qtl_marker |
To | E653S | RFLP | Oryza sativa | qtl_marker |
To | E31210S | RFLP | Oryza sativa | qtl_marker |
To | R2123 | RFLP | Oryza sativa | qtl_marker |
To | E11025 | RFLP | Oryza sativa | qtl_marker |
To | RZ144 | RFLP | Oryza sativa | qtl_marker |
To | L136 | RFLP | Oryza sativa | qtl_marker |
To | Y4836R | RFLP | Oryza sativa | qtl_marker |
Term Type | Term | Evidence |
---|---|---|
Trait Ontology | (TO:0000466) | Ishimaru-K et al., 2001 (IAGP) |
Plant Structure | (PO:0009001) | Ishimaru-K et al., 2001 (SM) |
(PO:0000003) | Gramene curators, 2007 (IC) | |
(PO:0009011) | Gramene curators, 2007 (IC) | |
Plant Growth and Development Stage | (PO:0007038) | Ishimaru-K et al., 2001 (SM) |
(PO:0007033) | Gramene curators, 2007 (IC) | |
(PO:0009012) | Gramene curators, 2007 (IC) | |
Growth Stage | (GRO:0007001) | Ishimaru-K et al., 2001 (SM) |
Environment | (EO:0007403) | Gramene curators, 2007 (IC) |
Species Ontology | (GR_tax:013681) | Ishimaru-K et al., 2001 (SM) |
Chr | Start | Stop | Exp | Num. SNP Positions | |
---|---|---|---|---|---|
chr6 | 6,822,035 | 11,681,093 | ~160K SNPs x 20 accessions (McNally 2... | 2,890 | Search for SNPs |
chr6 | 6,822,035 | 11,681,093 | '1536 chip' - 1311 SNPs x 395 rice ac... | 22 | Search for SNPs |
chr6 | 6,822,035 | 11,681,093 | Huang X, et al, Nat Genetics 2010 Nov... | 13,708 | Search for SNPs |
chr6 | 6,822,035 | 11,681,093 | RiceDiversity 44K SNP assay, 34 trait... | 13,708 | Search for SNPs |
chr6 | 6,822,035 | 11,681,093 | RiceDiversity 44K SNP assay, 34 trait... | 507 | Search for SNPs |