Oryza sativa QTL "CQE27" (grain number)

QTL Accession ID

CQE27

Species

Oryza sativa (Rice) [ GR_tax:013681 ]

Trait Symbol

GRNB

Trait Name

grain number

Published Symbol

Trait Synonym(s)

GN	KNO
grain number per panicle	grains per panicle
kernel number	kernels per spike

Trait Category

Yield

Chromosome

Comments

Number of grains per panicle. The means of ten replications per line were used in the data analysis. Phenotypic effect contributed by Nipponbare allele. 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 t of committing a type-I error.

Map Positions (2)

Oryza sativa Japonica Group (1)

Map Type

Map Set

Name

Map

Position

Ext. Links

Sequence

Gramene Annotated Nipponbare Sequence 2009

BNL6.32

Chr. 3

7,755,120-35,557,928 bp

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Details

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Oryza sativa (1)

Map Type

Map Set

Name

Map

Position

Ext. Links

QTL

JRGP Nip/Kas F2 QTL 2000

BNL6.32

99.6-158.2 cM

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Details

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QTL DB Map Position (1)

Name	Chromosome	Start	Stop
CQE27	3	99.6	158.2

Associated Markers (129)

Direction	Name	Type	Species	Assoc. Type
To	ABG391	RFLP	Hordeum vulgare	qtl_marker
To	B203	RFLP	Hordeum vulgare	qtl_marker
To	C1141	RFLP	Oryza sativa	qtl_marker
To	C1164	RFLP	Oryza sativa	qtl_marker
To	C1219	RFLP	Oryza sativa	qtl_marker
To	C1329	RFLP	Oryza sativa	qtl_marker
To	C1351	RFLP	Oryza sativa	qtl_marker
To	C1354	RFLP	Oryza sativa	qtl_marker
To	C136	RFLP	Oryza sativa	qtl_marker
To	C1401	RFLP	Oryza sativa	qtl_marker
To	C1442	RFLP	Oryza sativa	qtl_marker
To	C1468	RFLP	Oryza sativa	qtl_marker
To	C1484	RFLP	Oryza sativa	qtl_marker
To	C1936	RFLP	Oryza sativa	qtl_marker
To	C217	RFLP	Oryza sativa	qtl_marker
To	C2540	RFLP	Oryza sativa	qtl_marker
To	C393	RFLP	Oryza sativa	qtl_marker
To	C5	RFLP	Oryza sativa	qtl_marker
To	C50029S	RFLP	Oryza sativa	qtl_marker
To	C50078S	RFLP	Oryza sativa	qtl_marker
To	C50518S	RFLP	Oryza sativa	qtl_marker
To	C50771S	RFLP	Oryza sativa	qtl_marker
To	C51151S	RFLP	Oryza sativa	qtl_marker
To	C53339S	RFLP	Oryza sativa	qtl_marker
To	C595	RFLP	Oryza sativa	qtl_marker
To	C746	RFLP	Oryza sativa	qtl_marker
To	C831	RFLP	Oryza sativa	qtl_marker
To	C944	RFLP	Oryza sativa	qtl_marker
To	cDbTUB30	RFLP	Oryza sativa	qtl_marker
To	CDO542	RFLP	Avena sativa	qtl_marker
To	csu150	RFLP	Zea mays subsp. mays	qtl_marker
To	R250	RFLP	Oryza sativa	qtl_marker
To	R10747S	RFLP	Oryza sativa	qtl_marker
To	M314	RFLP	Zea mays subsp. mays	qtl_marker
To	M309	RFLP	Zea mays subsp. mays	qtl_marker
To	PgigA	RFLP	Oryza sativa	qtl_marker
To	S10057	RFLP	Oryza sativa	qtl_marker
To	E50451S	RFLP	Oryza sativa	qtl_marker
To	R2752	RFLP	Oryza sativa	qtl_marker
To	R654	RFLP	Oryza sativa	qtl_marker
To	Y3335L	RFLP	Oryza sativa	qtl_marker
To	RZ783	RFLP	Oryza sativa	qtl_marker
To	S2606	RFLP	Oryza sativa	qtl_marker
To	S10283	RFLP	Oryza sativa	qtl_marker
To	S10209	RFLP	Oryza sativa	qtl_marker
To	S1803	RFLP	Oryza sativa	qtl_marker
To	R2847	RFLP	Oryza sativa	qtl_marker
To	G4002	RFLP	Oryza sativa	qtl_marker
To	PSR1871	RFLP	Triticum aestivum	qtl_marker
To	R1538	RFLP	Oryza sativa	qtl_marker
To	R1770	RFLP	Oryza sativa	qtl_marker
To	UMC107	RFLP	Zea mays subsp. mays	qtl_marker
To	R321	RFLP	Oryza sativa	qtl_marker
To	R2060	RFLP	Oryza sativa	qtl_marker
To	S738	RFLP	Oryza sativa	qtl_marker
To	S10087	RFLP	Oryza sativa	qtl_marker
To	C10769	RFLP	Oryza sativa	qtl_marker
To	M326	RFLP	Zea mays subsp. mays	qtl_marker
To	S10281	RFLP	Oryza sativa	qtl_marker
To	R2690	RFLP	Oryza sativa	qtl_marker
To	PSR821	RFLP	Triticum aestivum	qtl_marker
To	E3011S	RFLP	Oryza sativa	qtl_marker
To	V224	RFLP	Oryza sativa	qtl_marker
To	E50341S	RFLP	Oryza sativa	qtl_marker
To	E10030S	RFLP	Oryza sativa	qtl_marker
To	S11669	RFLP	Oryza sativa	qtl_marker
To	R689	RFLP	Oryza sativa	qtl_marker
To	PSR819	RFLP	Triticum aestivum	qtl_marker
To	E11287S	RFLP	Oryza sativa	qtl_marker
To	R2462	RFLP	Oryza sativa	qtl_marker
To	E31057S	RFLP	Oryza sativa	qtl_marker
To	G249	RFLP	Oryza sativa	qtl_marker
To	S770	RFLP	Oryza sativa	qtl_marker
To	M303	RFLP	Zea mays subsp. mays	qtl_marker
To	R2632	RFLP	Oryza sativa	qtl_marker
To	S1912	RFLP	Oryza sativa	qtl_marker
To	R1618	RFLP	Oryza sativa	qtl_marker
To	V235	RFLP	Oryza sativa	qtl_marker
To	E31254	RFLP	Oryza sativa	qtl_marker
To	R2311	RFLP	Oryza sativa	qtl_marker
To	L154	RFLP	Oryza sativa	qtl_marker
To	M330	RFLP	Zea mays subsp. mays	qtl_marker
To	R2628	RFLP	Oryza sativa	qtl_marker
To	L119	RFLP	Oryza sativa	qtl_marker
To	R2404	RFLP	Oryza sativa	qtl_marker
To	R2856	RFLP	Oryza sativa	qtl_marker
To	E3180S	RFLP	Oryza sativa	qtl_marker
To	G1015	RFLP	Oryza sativa	qtl_marker
To	S2516	RFLP	Oryza sativa	qtl_marker
To	E11382S	RFLP	Oryza sativa	qtl_marker
To	E11757S	RFLP	Oryza sativa	qtl_marker
To	Pgi	RFLP	Oryza sativa	qtl_marker
To	R2443	RFLP	Oryza sativa	qtl_marker
To	G232	RFLP	Oryza sativa	qtl_marker
To	S13014	RFLP	Oryza sativa	qtl_marker
To	R3226	RFLP	Oryza sativa	qtl_marker
To	S13428	RFLP	Oryza sativa	qtl_marker
To	S11941	RFLP	Oryza sativa	qtl_marker
To	S10656	RFLP	Oryza sativa	qtl_marker
To	CSU63	RFLP	Zea mays subsp. mays	qtl_marker
To	S759	RFLP	Oryza sativa	qtl_marker
To	S851	RFLP	Oryza sativa	qtl_marker
To	R2224	RFLP	Oryza sativa	qtl_marker
To	G3003	RFLP	Oryza sativa	qtl_marker
To	R707	RFLP	Oryza sativa	qtl_marker
To	E765S	RFLP	Oryza sativa	qtl_marker
To	M315	RFLP	Zea mays subsp. mays	qtl_marker
To	R1927	RFLP	Oryza sativa	qtl_marker
To	R3020	RFLP	Oryza sativa	qtl_marker
To	R2966	RFLP	Oryza sativa	qtl_marker
To	G164	RFLP	Oryza sativa	qtl_marker
To	S906	RFLP	Oryza sativa	qtl_marker
To	E10579S	RFLP	Oryza sativa	qtl_marker
To	R273	RFLP	Oryza sativa	qtl_marker
To	V234	RFLP	Oryza sativa	qtl_marker
To	S10594	RFLP	Oryza sativa	qtl_marker
To	R3385	RFLP	Oryza sativa	qtl_marker
To	V233	RFLP	Oryza sativa	qtl_marker
To	S1866	RFLP	Oryza sativa	qtl_marker
To	S13262	RFLP	Oryza sativa	qtl_marker
To	S11301	RFLP	Oryza sativa	qtl_marker
To	S1509	RFLP	Oryza sativa	qtl_marker
To	PSR580	RFLP	Triticum aestivum	qtl_marker
To	S1469	RFLP	Oryza sativa	qtl_marker
To	C50665	RFLP	Oryza sativa	qtl_marker
To	E10195S	RFLP	Oryza sativa	qtl_marker
To	R1925	RFLP	Oryza sativa	qtl_marker
To	V186	RFLP	Oryza sativa	qtl_marker
To	G1318	RFLP	Oryza sativa	qtl_marker

Associated Genes (0)

Associated Ontologies (7)

Term Type	Term	Evidence
Trait Ontology	(TO:0000445)	Ishimaru-K et al., 2001 (IAGP)
Plant Structure	(PO:0009001)	Ishimaru-K et al., 2001 (SM)
	(PO:0009010)	Gramene curators, 2007 (IC)
Plant Growth and Development Stage	(PO:0007038)	Ishimaru-K et al., 2001 (SM)
Growth Stage	(GRO:0007045)	Ishimaru-K et al., 2001 (SM)
Environment	(EO:0007403)	Gramene curators, 2007 (IC)
Species Ontology	(GR_tax:013681)	Ishimaru-K et al., 2001 (SM)

Database Cross-References (1)

Gramene Literature	Ishimaru-K, Yano-M, Aoki-N, Ono-K, Hirose-T, Lin-S-Y, Monna-L, Sasaki-T, Ohsugi-R, "Toward the mapping of physiological and agronomic characters on a rice function map: QTL analysis and comparison between QTLs and expressed sequence tags", Theoretical and applied genetics, 2001, vol. 102- (6/7-)., pp. 793-800

SNPs (143,711)

Chr	Start	Stop	Exp	Num. SNP Positions
chr3	7,755,120	35,557,928	~160K SNPs x 20 accessions (McNally 2...	13,443	Search for SNPs
chr3	7,755,120	35,557,928	'1536 chip' - 1311 SNPs x 395 rice ac...	84	Search for SNPs
chr3	7,755,120	35,557,928	Huang X, et al, Nat Genetics 2010 Nov...	63,454	Search for SNPs
chr3	7,755,120	35,557,928	RiceDiversity 44K SNP assay, 34 trait...	63,454	Search for SNPs
chr3	7,755,120	35,557,928	RiceDiversity 44K SNP assay, 34 trait...	3,276	Search for SNPs

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