Oryza sativa QTL "CQE20" (yield)

QTL Accession ID	CQE20
Species	Oryza sativa (Rice) [ GR_tax:013681 ]
Trait Symbol	YLD
Trait Name	yield
Published Symbol
Trait Synonym(s)
Trait Category	Yield
Chromosome	3
Comments	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 to QTLs with a single-factor P of d0.01 to reduce the likelihood of committing a type-I error. The yield trait is correlated with abaxial stomatal frequency (ABXSTOFQ) with r=0.415; P<0.01 and adaxial stomatal frequency (ADXSTOFQ) with r=0.481; P<0.01.

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

17,713,671-33,619,269 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

85.2-135.7 cM

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Details

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QTL DB Map Position (1)

Name	Chromosome	Start	Stop
CQE20	3	85.2	135.7

Associated Markers (108)

Direction	Name	Type	Species	Assoc. Type
To	ABC164	RFLP	Hordeum vulgare	qtl_marker
To	C10241S	RFLP	Oryza sativa	qtl_marker
To	C1122	RFLP	Oryza sativa	qtl_marker
To	C12027S	RFLP	Oryza sativa	qtl_marker
To	C1351	RFLP	Oryza sativa	qtl_marker
To	C136	RFLP	Oryza sativa	qtl_marker
To	C1468	RFLP	Oryza sativa	qtl_marker
To	C1936	RFLP	Oryza sativa	qtl_marker
To	C2394	RFLP	Oryza sativa	qtl_marker
To	C269	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	C50491S	RFLP	Oryza sativa	qtl_marker
To	C51151S	RFLP	Oryza sativa	qtl_marker
To	C51309S	RFLP	Oryza sativa	qtl_marker
To	C52104S	RFLP	Oryza sativa	qtl_marker
To	C549	RFLP	Oryza sativa	qtl_marker
To	C595	RFLP	Oryza sativa	qtl_marker
To	C62373S	RFLP	Oryza sativa	qtl_marker
To	C716S	RFLP	Oryza sativa	qtl_marker
To	C746	RFLP	Oryza sativa	qtl_marker
To	C80	RFLP	Oryza sativa	qtl_marker
To	C816	RFLP	Oryza sativa	qtl_marker
To	C944	RFLP	Oryza sativa	qtl_marker
To	CDO542	RFLP	Avena sativa	qtl_marker
To	E30331S	RFLP	Oryza sativa	qtl_marker
To	RZ576	RFLP	Oryza sativa	qtl_marker
To	L708	RFLP	Oryza sativa	qtl_marker
To	E1178S	RFLP	Oryza sativa	qtl_marker
To	S3287	RFLP	Oryza sativa	qtl_marker
To	V218	RFLP	Oryza sativa	qtl_marker
To	R2816	RFLP	Oryza sativa	qtl_marker
To	S2274	RFLP	Oryza sativa	qtl_marker
To	MWG876	RFLP	Hordeum vulgare	qtl_marker
To	S5867S	RFLP	Oryza sativa	qtl_marker
To	E61340S	RFLP	Oryza sativa	qtl_marker
To	R606	RFLP	Oryza sativa	qtl_marker
To	R3235	RFLP	Oryza sativa	qtl_marker
To	pTtksuD22	RFLP	Aegilops tauschii	qtl_marker
To	V211	RFLP	Oryza sativa	qtl_marker
To	R1908	RFLP	Oryza sativa	qtl_marker
To	S2470	RFLP	Oryza sativa	qtl_marker
To	CSU36	RFLP	Zea mays subsp. mays	qtl_marker
To	R3239	RFLP	Oryza sativa	qtl_marker
To	Pgi1	RFLP	Oryza sativa	qtl_marker
To	G332	RFLP	Oryza sativa	qtl_marker
To	CSU21	RFLP	Zea mays subsp. mays	qtl_marker
To	csu71	RFLP	Zea mays subsp. mays	qtl_marker
To	S10558	RFLP	Oryza sativa	qtl_marker
To	G1316	RFLP	Oryza sativa	qtl_marker
To	M313	RFLP	Zea mays subsp. mays	qtl_marker
To	V232	RFLP	Oryza sativa	qtl_marker
To	M327	RFLP	Zea mays subsp. mays	qtl_marker
To	S10301	RFLP	Oryza sativa	qtl_marker
To	csu102	RFLP	Zea mays subsp. mays	qtl_marker
To	S10775S	RFLP	Oryza sativa	qtl_marker
To	PSR100	RFLP	Triticum aestivum	qtl_marker
To	R440	RFLP	Oryza sativa	qtl_marker
To	E11534S	RFLP	Oryza sativa	qtl_marker
To	L481	RFLP	Oryza sativa	qtl_marker
To	S1466	RFLP	Oryza sativa	qtl_marker
To	E1419S	RFLP	Oryza sativa	qtl_marker
To	S11539	RFLP	Oryza sativa	qtl_marker
To	S13580	RFLP	Oryza sativa	qtl_marker
To	R19	RFLP	Oryza sativa	qtl_marker
To	S10742	RFLP	Oryza sativa	qtl_marker
To	R250	RFLP	Oryza sativa	qtl_marker
To	R10747S	RFLP	Oryza sativa	qtl_marker
To	csu150	RFLP	Zea mays subsp. mays	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	R2752	RFLP	Oryza sativa	qtl_marker
To	E50451S	RFLP	Oryza sativa	qtl_marker
To	R654	RFLP	Oryza sativa	qtl_marker
To	Y3335L	RFLP	Oryza sativa	qtl_marker
To	S1803	RFLP	Oryza sativa	qtl_marker
To	S10283	RFLP	Oryza sativa	qtl_marker
To	S10209	RFLP	Oryza sativa	qtl_marker
To	S2606	RFLP	Oryza sativa	qtl_marker
To	RZ783	RFLP	Oryza sativa	qtl_marker
To	R2847	RFLP	Oryza sativa	qtl_marker
To	G4002	RFLP	Oryza sativa	qtl_marker
To	R1770	RFLP	Oryza sativa	qtl_marker
To	PSR1871	RFLP	Triticum aestivum	qtl_marker
To	R1538	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	S10087	RFLP	Oryza sativa	qtl_marker
To	S738	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	S11669	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	R689	RFLP	Oryza sativa	qtl_marker
To	E11287S	RFLP	Oryza sativa	qtl_marker
To	PSR819	RFLP	Triticum aestivum	qtl_marker
To	R2462	RFLP	Oryza sativa	qtl_marker
To	E31057S	RFLP	Oryza sativa	qtl_marker

Associated Genes (0)

Associated Ontologies (11)

Term Type	Term	Evidence
Trait Ontology	(TO:0000396)	Ishimaru-K et al., 2001 (IAGP)
Plant Structure	(PO:0009010)	Ishimaru-K et al., 2001 (SM)
	(PO:0009001)	Gramene curators, 2007 (IC)
Plant Growth and Development Stage	(PO:0007134)	Ishimaru-K et al., 2001 (SM)
	(PO:0007130)	Ishimaru-K et al., 2001 (SM)
	(PO:0007038)	Gramene curators, 2007 (IC)
Growth Stage	(GRO:0007139)	Ishimaru-K et al., 2001 (SM)
	(GRO:0007140)	Ishimaru-K et al., 2001 (SM)
	(GRO:0007045)	Gramene curators, 2007 (IC)
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 (85,096)

Chr	Start	Stop	Exp	Num. SNP Positions
chr3	17,713,671	33,619,269	~160K SNPs x 20 accessions (McNally 2...	7,681	Search for SNPs
chr3	17,713,671	33,619,269	'1536 chip' - 1311 SNPs x 395 rice ac...	37	Search for SNPs
chr3	17,713,671	33,619,269	Huang X, et al, Nat Genetics 2010 Nov...	37,720	Search for SNPs
chr3	17,713,671	33,619,269	RiceDiversity 44K SNP assay, 34 trait...	37,720	Search for SNPs
chr3	17,713,671	33,619,269	RiceDiversity 44K SNP assay, 34 trait...	1,938	Search for SNPs

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