Association analysis for udder health based on SNP-panel and sequence data in Danish Holsteins

Wu, Xiaoping; Lund, Mogens S; Sahana, Goutam; Guldbrandtsen, Bernt; Sun, Dongxiao; Zhang, Qin; Su, Guosheng

doi:10.1186/s12711-015-0129-1

Genetics Selection Evolution

Table 3 Genes located within or closest to the QTL regions

From: Association analysis for udder health based on SNP-panel and sequence data in Danish Holsteins

Chr	Start_pos(bp)	End_pos(bp)	Reg_size	Gene symbol	Distance(bp)	r²
5	84128853	84232545	103,692	SSPN	overlap	0.51
5	86979804	87132636	152,832	SOX5,LOC101906017	overlap	0.36
5	87331630	87387548	55,918	TRNAG-CCC	121,327	0.65
5	88917412	88967709	50,297	LDHB	overlap	0.83
5	89457697	89510420	52,723	SLCO1C1	Overlap	1.00
5	89581859	89643424	61,565	PDE3A	Overlap	0.88
5	91175414	91271746	96,332	PLEKHA5	Overlap	0.56
5	94025000	94448464	423,464	DERA	Overlap	0.31
6	88056115	88164130	108,015	DCK	Overlap	0.58
6	88355595	88476214	120,619	SLC4A4	Overlap	0.70
6	88813863	88828238	14,375	GC	74,566	1.00
6	88841591	89072556	230,965	NPFFR2	102,294	0.79
6	92877489	92929724	52,235	SCARB2, FAM47E	Overlap	0.62
6	93440325	93546958	106,633	SOWAHB,SEPT11	Overlap	0.63
6	95216638	95255224	38,586	LOC101904933	Overlap	0.63
13	57509023	57581780	72,757	EDN3	Overlap	0.75
13	57733575	57868987	135,412	SLMO2, LOC100140850	Overlap	0.99
13	58701953	58817166	115,213	C13H20orf85	within	0.78
13	59072545	59132622	60,077	ZBP1	within	0.25
13	59150552	59236725	86,173	CTCFL,LOC101903272	within	0.41
13	59421380	59480987	59,607	BMP7	overlap	0.53
13	59847351	59865177	17,826	LOC101903611	18,568	0.97
16	48274699	48326469	51,770	NPHP4	overlap	0.64
16	48926813	49072532	145,719	LOC100297820	138,439	0.61
16	50624458	50723980	99,522	LOC515105,WRAP73,TPRG1L, MEGF6	overlap	0.52
16	51020468	51057724	37,256	PRDM16	overlap	0.95
19	55035976	55078482	42,506	SEPT9	overlap	0.99
19	56545652	56643735	98,083	SAP30BP, RECQL5, SMIM5, LOC100302389,MYO15B, LOC101907888	overlap	0.97
19	57102415	57184032	81,617	FDXR, USH1G, OTOP2, FADS6	overlap	0.36
19	57979089	57999724	20,635	RPL38	164,726	0.58
20	35525215	35566004	40,789	OSMR,RICTOR	overlap	0.66
20	35900432	36010180	109,748	LIFR,EGFLAM	overlap	0.67
20	39432294	39613378	181,084	RAI14	overlap	0.77

QTL regions were detected by analysis of QTL intensity using SEQ data; Chr = chromosome; Start_pos = start position of the QTL region; End_pos = end position of the QTL region; Reg_size = size of the QTL region; Distance = distance between gene and QTL region; r² = linkage disequilibrium between significant SNPs (BF ≥ 3.2) within each region

Back to article page

ISSN: 1297-9686

Contact us

Submission enquiries: helene.hayes@inrae.fr
General enquiries: info@biomedcentral.com