QTL Accession ID | CQJ9 | ||||||||||||
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Species | Oryza sativa (Rice) [ GR_tax:013681 ] | ||||||||||||
Trait Symbol | PNNB | ||||||||||||
Trait Name | panicle number | ||||||||||||
Published Symbol | |||||||||||||
Trait Synonym(s) |
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Trait Category | Yield | ||||||||||||
Chromosome | 6 | ||||||||||||
Comments | The potted plant experiments carried out in green house at Hangzhou, China. The two seedlings of every line were potted with 15 kg of air-dried soil per pot and every line was planted in three pots. The temperature in the greenhouse ranged from 22C to 39C. The experiments were maintained under flooded conditions during the growing period. Panicle number was recorded after harvest. Fertility and cultivation practices were consistent with optimum rice production for these regions. One-way ANOVA (SAS/6.11, GLM) and interval-mapping analysis (Mapmaker/QTL) were performed for detecting molecular markers and QTLs. Epistasis for variations in the parameters was analyzed using the program QTLmapper. P < 0.005 for the Type-I error and a log-10 likelihood ratio (LOD) value of 2.4 were used as criteria to indicate putative QTL positions. The effects of a single allele substitution (assuming additivity between alleles) and R2 values for each of the putative QTLs were estimated. Correlation analysis between the measurement parameters was performed using the correlation procedure of SAS. It is an epistatic loci for panicle number QTL (feature accession ID: CQJ4) on chr-2. It contributes about 12% of total variation. |
Map Type | Map Set | Name | Map | Position | Ext. Links | |||
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Sequence | Gramene Annotated Nipponbare Sequence 2009 | BNL6.32 | Chr. 6 | 24,033,542-24,455,212 bp | View Comparative Map | |||
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Map Type | Map Set | Name | Map | Position | Ext. Links | |||
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QTL | Zejiang IR64/Azu DH QTL 2001 | BNL6.32 | 6 | 123.9-128.3 cM | View Comparative Map | |||
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Name | Chromosome | Start | Stop |
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CQJ9 | 6 | 123.9 | 128.3 |
Direction | Name | Type | Species | Assoc. Type |
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To | CDO544 | RFLP | Avena sativa | qtl_marker |
To | RG162 | RFLP | Oryza sativa | qtl_marker |
To | RG172 | RFLP | Oryza sativa | qtl_marker |
To | RG424 | RFLP | Oryza sativa | qtl_marker |
Term Type | Term | Evidence |
---|---|---|
Trait Ontology | (TO:0000152) | Liao-C-Y et al., 2001 (IAGP) |
Plant Structure | (PO:0009049) | Liao-C-Y et al., 2001 (SM) |
Plant Growth and Development Stage | (PO:0007041) | Liao-C-Y et al., 2001 (SM) |
(PO:0007130) | Gramene curators, 2007 (IC) | |
Growth Stage | (GRO:0007044) | Liao-C-Y et al., 2001 (SM) |
Environment | (EO:0007403) | Gramene curators, 2007 (IC) |
Species Ontology | (GR_tax:013681) | Liao-C-Y et al., 2001 (SM) |
Chr | Start | Stop | Exp | Num. SNP Positions | |
---|---|---|---|---|---|
chr6 | 24,033,542 | 24,455,212 | ~160K SNPs x 20 accessions (McNally 2... | 465 | Search for SNPs |
chr6 | 24,033,542 | 24,455,212 | '1536 chip' - 1311 SNPs x 395 rice ac... | 1 | Search for SNPs |
chr6 | 24,033,542 | 24,455,212 | Huang X, et al, Nat Genetics 2010 Nov... | 826 | Search for SNPs |
chr6 | 24,033,542 | 24,455,212 | RiceDiversity 44K SNP assay, 34 trait... | 826 | Search for SNPs |
chr6 | 24,033,542 | 24,455,212 | RiceDiversity 44K SNP assay, 34 trait... | 80 | Search for SNPs |