Genetic determinants of pig birth weight variability

Wang, Xuemin; Liu, Xiaolei; Deng, Dadong; Yu, Mei; Li, Xiaoping

doi:10.1186/s12863-015-0309-6

BMC Genomic Data

Table 1 The annotated genes between 500 kb downstream and 500 kb upstream of the 50 SNPs with the lowest p value from the GWAS

From: Genetic determinants of pig birth weight variability

No	SNP name	Pig chromosome	Position (Mb)	P value	Adjacent genes^a (±0.5 Mb)	Distance^b (bp)
1	ALGA0007307	1	206.50	0.0003	PELI2, *TMEM260,* OTX2, EXOC5	*within*
2	DRGA0004275	3	129.20	0.0004	*FAM49A*	*within*
3	ALGA0083116	14	149.00	0.0006	FOXI2, NPS, *PTPRE,* MKI67	*within*
4	ALGA0083057	14	147.76	0.0006	*FAM196A*	488070
5	ASGA0040051	8	139.04	0.0006	MMRN1, SNCA, *GPRIN3*	293849
6	MARC0115245	13	188.57	0.0007	NA^c
7	ASGA0061743	14	16.41	0.0008	GATA4,NEIL2,FDFT1, CTSB, *DEFB134,* ADAM29	−44520
8	DIAS0000130	7	39.09	0.0010	ZFAND3, *BTBD9,* GLO1, DNAH8	*within*
9	DRGA0013238	13	188.95	0.0010	*LIPI*	380204
10	DRGA0008884	8	139.01	0.0011	MMRN1 , SNCA, *GPRIN3*	317059
11	H3GA0039777	14	37.65	0.0012	NOS1, FBXO21 *, TESC,* FBXW8, RNFT2	*within*
12	ALGA0114335	8	17.21	0.0012	ADGRA3, *GBA3*	*within*
13	ALGA0040467	7	38.40	0.0012	CCDC167, *MDGA1* ,ZFAND3	−227337
14	ALGA0040474	7	38.89	0.0012	CPNE5, PPIL1, PI16, MTCH1, FGD2, PIM1, TMEM217, TBC1D22B, RNF8, *ZFAND3* , CCDC167, MDGA1	−142259
15	ASGA0083383	18	17.18	0.0012	*CHCHD3*	*within*
16	ALGA0097813	18	32.55	0.0013	*TFEC*	−338821
17	H3GA0020922	7	38.06	0.0013	FGD2, PIM1, TMEM217, TBC1D22B, RNF8, *CCDC167,* MDGA1	−85741
18	ALGA0040434	7	38.08	0.0013	FGD2, PIM1, TMEM217, TBC1D22B, RNF8, *CCDC167,* MDGA1	−106358
19	ALGA0109619	13	20.09	0.0013	STT3B, *OSBPL10,* CMTM6, DYNC1LI1, CMTM7, CMTM 8	*within*
20	MARC0090396	3	130.65	0.0014	ENSSSCG00000008620	*within*
21	H3GA0019379	7	37.84	0.0014	PPIL1, PI16, MTCH1, FGD2, PIM1, TMEM217, *TBC1D22B,* RNF8, ZFAND3, CCDC167, MDGA1	−93575
22	ASGA0068602	15	12.98	0.0014	*LRP1B*	−50827
23	ALGA0070915	13	81.34	0.0014	CHST13, ACPP, DNAJC13, *ACAD11,* UBA5	*within*
24	DRGA0015381	15	121.31	0.0015	IN080D,NDUFS1, EEF1B2, GPR1, ZDBF2, *ADAM23,* FASTKD2, MDH1B, CPO	*within*
25	ASGA0016323	3	124.90	0.0016	*APOB*	326494
26	MARC0061348	7	38.21	0.0016	TMEM217, TBC1D22B, RNF8, CCDC167, *MDGA1*	−98887
27	DRGA0007508	7	38.82	0.0016	*ZFAND3,* BTBD9, GLO1, DNAH8	−73453
28	MARC0084509	4	5.59	0.0016	NA
29	ALGA0037853	7	0.43	0.0016	*CCDC167,* FOXQ1, FOXF2, GMDS,	20912
30	ASGA0037952	8	17.25	0.0016	*ADGRA3*	−312721
31	ALGA0087652	15	140.88	0.0017	*NYAP2*	−349642
32	ALGA0040570	7	39.63	0.0018	GLO1,DNAH8, *GLP1R,* KCNK5,KCNK17,KIF6	*within*
33	ASGA0062412	14	29.48	0.0018	*TMEM132B,* AACS, BRI3BP, DHX37	*within*
34	ASGA0032735	7	38.46	0.0018	CCDC167, *MDGA1* , ZFAND3	−316254
35	ALGA0040468	7	38.54	0.0018	CCDC167, *MDGA1* , ZFAND3	202512
36	ASGA0027748	6	18.83	0.0019	CNOT1, *GOT2*	−323698
37	ALGA0012631	2	25.98	0.0020	NA
38	MARC0008120	7	37.81	0.0020	CPNE5,PPIL1,PI16,MTCH1,PTGDS, PIM1, TMEM217, *TBC1D22B,* RNF8, CCDC167, MDGA1	−69290
39	DRGA0002077	1	254.15	0.0022	*RORB*	461748
40	BGIS0006392	1	244.49	0.0022	*KCNV2*	473499
41	ALGA0083738	15	0.26	0.0023	*NMI*	−227794
42	ASGA0032683	7	37.95	0.0023	PPIL1,PI16,MTCH1,PTGDS,PIM1, TMEM217, TBC1D22B, RNF8, *CCDC167,* MDGA1	−45021
43	ALGA0040427	7	37.97	0.0023	PPIL1,PI16,MTCH1,PTGDS,PIM1, TMEM217, TBC1D22B, RNF8, *CCDC167,* MDGA1	−62182
44	DIAS0003266	13	38.47	0.0024	GNL3,GLT8D1, SPCS1, NEK4, ITIH3, ITIH4, SFMBT1, PRKCD, TKT, *DCP1A*	*within*
45	ALGA0106090	15	2.84	0.0024	LYPD6B, *KIF5C*	*within*
46	ASGA0038720	8	40.37	0.0026	SLAIN2, *SLC10A4* , ZAR1	39595
47	SIRI0000172	14	87.58	0.0026	NA
48	ALGA0076580	14	29.46	0.0027	*TMEM132B,* AACS, BRI3BP, DHX37	*within*
49	ALGA0049776	8	138.91	0.0027	MMRN1, *SNCA* , GPRIN3	−275407
50	ASGA0032655	7	37.40	0.0028	PNPLA1,ETV7,STK38,SRSF3,RAB44, *CPNE5,* PPIL1,PI16,MTCH1,PTGDS,PIM1, TMEM217,TBC1D22B, RNF8	*within*

^agene with black bold is the nearest gene from the SNP. ^bPositive value denotes the gene located downstream of the SNP, negative value denotes the gene located upstream of the SNP. ^cno gene has been identified in this region

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