Genome-wide association studies (GWAS) identify a QTL close to PRKAG3 affecting meat pH and colour in crossbred commercial pigs

Zhang, Chunyan; Wang, Zhiquan; Bruce, Heather; Kemp, Robert Alan; Charagu, Patrick; Miar, Younes; Yang, Tianfu; Plastow, Graham

doi:10.1186/s12863-015-0192-1

Table 3 Single marker statistical significance test ( P_values ) for other SNPs in the SSC15_133 region after accounting for the effect of SNP21 (MARC0083357)

From: Genome-wide association studies (GWAS) identify a QTL close to PRKAG3 affecting meat pH and colour in crossbred commercial pigs

SNP_ID	SNP_name	Position	MAF	LD with SNP21	*P_values*
SNP_ID	SNP_name	Position	MAF	LD with SNP21	QFCOL b*	QFCOL a*	TMCOL b*	FpH24	TMpH
2	ASGA0070560	133072097	0.44	0.36	0.775	0.971	0.896	0.755	0.560
3	ALGA0087078	133108407	0.36	0.12	0.905	0.739	0.234	0.796	0.965
4	H3GA0044951	133118381	0.36	0.15	0.757	0.616	0.797	0.652	0.587
5	ASGA0070582	133138277	0.43	0.35	0.794	0.979	0.994	0.682	0.875
6	ASGA0070586	133160977	0.48	0.24	0.860	0.987	0.916	0.967	0.441
7	ALGA0087090	133194513	0.28	0.30	0.473	0.860	0.949	0.586	0.215
8	H3GA0054274	133220838	0.18	0.14	0.189	0.573	0.821	0.808	0.991
9	MARC0082467	133269167	0.44	0.63	0.411	0.003	0.090	0.458	0.170
10	ALGA0087116	133342361	0.43	0.35	0.922	0.900	0.432	0.786	0.614
11	ALGA0087118	133355327	0.15	0.01	0.348	0.488	0.484	0.840	0.157
12	BGIS0003381	133382636	0.20	0.00	0.004	0.239	0.956	0.090	0.889
13	ASGA0070620	133427999	0.31	0.21	0.520	0.034	0.460	0.530	0.428
14	ALGA0087127	133456604	0.30	0.41	0.908	0.137	0.966	0.555	0.010
15	H3GA0044992	133465593	0.18	0.14	0.077	0.449	0.619	0.847	0.847
16	ASGA0070623	133493709	0.15	0.21	0.953	0.373	0.020	0.195	0.606
18	ASGA0070634	133640599	0.42	0.69	0.999	0.135	0.050	0.656	0.003
19	DIAS0000968	133656928	0.38	0.28	0.848	0.014	0.455	0.162	0.002
20	ASGA0070625	133677385	0.49	0.97	N/A	N/A	N/A	N/A	N/A
21	MARC0083357	133738342	0.50	Fixed	N/A	N/A	N/A	N/A	N/A
22	DBUN0002708	133836471	0.44	0.78	0.911	0.078	0.060	0.442	0.008
23	MARC0004740	133864581	0.10	0.00	0.307	0.103	0.597	0.723	0.013
24	M1GA0020450	133929898	0.20	0.27	0.211	0.858	0.602	0.484	0.047
25	ALGA0087141	133948641	0.34	0.16	0.909	0.220	0.080	0.969	0.179
26	H3GA0045012	133956838	0.21	0.02	0.997	0.154	0.076	0.855	0.128
27	MARC0039273	133964455	0.50	1.00	N/A	N/A	N/A	N/A	N/A
28	ASGA0070646	133970166	0.46	0.63	0.110	0.020	0.576	0.455	0.961

Note: bold data means P < 0.05.
*indicates the trait name of Minolta colour a* and b*.

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