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. 2021 Oct 11;12:664343. doi: 10.3389/fgene.2021.664343

TABLE 4.

Description of SNPs significantly associated with BMICL, BMIBL, and BMIBH in DLY pigs.

Traits SSC a SNP ID Position (bp) b MAF p-value (MLM) p-value (FarmCPU) r 2/% c Distance (bp) Nearest gene
BMICL 4 WU_10.2_4_3046732 3,559,394 0.14 1.16E–05 3.1 494,158 TRAPPC9
4 ASGA0017873 7,875,059 0.48 7.49E–05 6.17 within ST3GAL1
4 WU_10.2_4_136884741 125,301,443 0.41 6.59E–06 3.13 within TGFBR3
7 WU_10.2_7_49907567 43,478,519 0.27 1.02E–09 6.12 118,773 MMUT
7 ASGA0034652 81,310,017 0.09 6.86E–07 3.14 101,683 RYR3
12 ALGA0122685 43,952,687 0.42 4.67E–05 2.96 33,053 KSR1
14 DIAS0004697 10,274,713 0.49 1.01E–04 5.94 within PPP2R2A
14 ASGA0061212 10,327,418 0.48 8.01E–05 5.89 within BNIP3L
14 14_12070780 10892893 0.12 9.54E–05 1.11E–05 4.72 94,443 STMN4
14 ASGA0066313 116,729,015 0.19 6.97E–06 5.42 — —
15 WU_10.2_15_136106170 122,789,034 0.49 4.76E–05 1.57 — —
17 WU_10.2_17_16861730 15,492,508 0.42 7.23E–05 5.38 257,327 BMP2
17 WU_10.2_17_17479009 15,827,454 0.37 3.76E–06 6.3 66,239 BMP2
17 WU_10.2_17_17981232 16,253,154 0.33 1.42E–08 4.32E–07 10.13 491,286 HA O 1
17 MARC0028591 16,634,316 0.21 1.07E–04 5.36 110,124 HA O 1
17 ALGA0093478 16,919,581 0.40 1.50E–05 6 38,251 TMX4
17 DBMA0000205 18,319,097 0.24 6.89E–06 7.75 83,449 PLCB4
BMIBL 2 M1GA0024370 41,570,652 0.36 1.26E–06 7.47 within OTOG
3 ALGA0020800 108,685,228 0.28 2.34E–07 5.34 5,650 LCLAT1
3 WU_10.2_3_117349436 110,594,886 0.18 7.67E–07 2.46 11,035 PLB1
4 ALGA0023916 20,318,986 0.35 9.07E–06 4.7 within SAMD12
5 H3GA0015868 17,192,568 0.42 4.25E–08 10.14 23,004 SCN8A
5 ALGA0031952 50,860,053 0.36 6.70E–05 4.2 54,759 ETNK1
7 SIRI0000046 29,878,705 0.12 3.25E–05 1.62E–08 5.9 within ITPR3
7 ASGA0034397 65,649,418 0.17 5.35E–05 0.14 156,082 EGLN3
8 ALGA0124320 96,665,022 0.09 9.75E–06 4.23 within JADE1
10 ALGA0056836 7,925,254 0.33 1.60E–06 4.95 within SPATA17
10 ALGA0106806 41,215,023 0.41 2.92E–06 1.67 37,046 SVIL
11 ALGA0061436 23,388,539 0.27 4.79E–05 1.08 within ENOX1
12 WU_10.2_12_57752831 55,009,055 0.41 3.12E–06 1.78 37,840 MYH13
13 WU_10.2_13_138014916 1,28,619,134 0.35 4.39E–05 2.45E–09 7.5 238 CCDC50
14 ALGA0080935 108,956,441 0.17 2.38E–05 8.83 2,435 C10orf62
15 ALGA0085736 63,541,092 0.23 1.81E–05 7.81 35,848 NR4A2
17 ALGA0123867 13,717,308 0.26 1.57E–06 1.01E–07 13.14 11,990 PRNP
17 WU_10.2_17_14580447 13,779,206 0.36 5.82E–05 8.38 5,914 RASSF2
17 WU_10.2_17_15712448 14,734,253 0.17 1.30E–06 12.06 26,347 SHLD1
17 WU_10.2_17_17075196 15,689,085 0.36 9.11E–05 10.14 60,750 BMP2
17 WU_10.2_17_17479009 15827454 0.37 1.36E–06 8.59 66,239 BMP2
17 DBMA0000205 18,319,097 0.24 2.14E–05 8.81 83,449 PLCB4
BMIBH 2 MARC0035424 149,466,993 0.09 2.66E–05 4.22 717 SPINK6
4 ASGA0022193 111,702,541 0.08 2.00E–06 5.34E–07 7.49 68,270 SLC25A24
7 ASGA0031627 19,251,635 0.11 7.45E–05 4.15 within MRS2
8 MARC0065833 76712691 0.1 3.27E–05 4.92E–06 5.7 13,340 FBXW7
8 WU_10.2_8_80223477 75,732,460 0.1 3.46E–05 5.69E–06 5.69 within MND1
8 H3GA0025014 76,555,090 0.11 1.04E–05 5.22 within FBXW7
8 ASGA0039051 74,641,551 0.1 1.32E–05 4.4 23,047 DCHS2
8 MARC0109188 73,439,961 0.1 2.15E–05 4.29 62,703 FRAS1
8 WU_10.2_8_80208219 75,717,201 0.11 2.72E–05 5 within MND1
8 ALGA0048253 74,373,748 0.09 5.30E–05 3.55 within RBM46
12 ASGA0054390 36,455,949 0.11 3.40E–05 4.38 within BRIP1
17 ALGA0092770 4,018,290 0.12 8.18E–05 3.32 78,564 MSR1
18 WU_10.2_18_18,355,722 17,275,733 0.14 4.89E–05 5.58 226,122 MKLN1

The italic values were genes nearest the significant SNPs.

a

Sus scrofa chromosome.

b

The positions of the associated SNPs on the Sus scrofa Build 11.1 assembly.

c

Proportion of total phenotypic variation explained by each SNP.