Table 2 Significant loci associated with pork cuts by imputation-based GWAS
From: Genetic dissection and genomic prediction for pork cuts and carcass morphology traits in pig
Traits | Top SNP | Chr | Pos, bp | P-value | Candidate gene1 | Dis2, bp |
|---|---|---|---|---|---|---|
Pork cuts weight | ||||||
 Boneless boston shoulder | 4_18049606 | 4 | 18,049,606 | 3.44E-07 | MTBP | 482,396 |
 Boneless boston shoulder | 8_28310248 | 8 | 28,310,248 | 5.60E-07 | DTHD1 | 236,341 |
 Boneless boston shoulder | 10_16027531 | 10 | 16,027,531 | 6.94E-08 | CEP170 | 41,008 |
 Boneless boston shoulder | 10_2216709 | 10 | 2,216,709 | 8.78E-07 |  |  |
 Boneless boston shoulder | 11_65555808 | 11 | 65,555,808 | 1.57E-07 | HS6ST3 | Within |
 Boneless boston shoulder | 13_204134036 | 13 | 204,134,036 | 1.44E-08 | DSCAM | Within |
 Boneless boston shoulder | 13_16622614 | 13 | 16,622,614 | 1.48E-07 | TGFBR2 | 161,877 |
 Boneless boston shoulder | 14_11938089 | 14 | 11,938,089 | 2.75E-09 | ELP3 | Within |
 Boneless boston shoulder | 15_44717893 | 15 | 44,717,893 | 4.52E-07 | WWC2 | Within |
 Fore leg bones | 7_106392250 | 7 | 106,392,250 | 8.66E-07 |  |  |
 Fore leg bones | 17_15643342 | 17 | 15,643,342 | 3.35E-11 | BMP2 | 106,493 |
 Ribs | 7_97578564 | 7 | 97,578,564 | 1.69E-10 | VRTN | 36,143 |
 Ribs | 17_15688035 | 17 | 15,688,035 | 5.46E-09 | BMP2 | 61,800 |
 Chine bones | 4_5079579 | 4 | 5,079,579 | 6.61E-07 | FAM135B | 421,559 |
 Chine bones | 7_97130183 | 7 | 97,130,183 | 2.88E-07 | VRTN | 484,524 |
 Chine bones | 8_32078955 | 8 | 32,078,955 | 9.80E-07 | APBB2 | Within |
 Chine bones | 9_137791545 | 9 | 137,791,545 | 6.29E-08 | GRB10 | 1,049,013 |
 Chine bones | 12_23208536 | 12 | 23,208,536 | 2.44E-07 | LASP1 | 14,172 |
 Chine bones | 17_15644200 | 17 | 15,644,200 | 1.70E-09 | BMP2 | 105,635 |
 Chine bones | 16_6316048 | 16 | 6,316,048 | 5.41E-08 | MYO10 | 170,606 |
 Tenderloin | 5_57305189 | 5 | 57,305,189 | 1.01E-07 | RERG | 44,188 |
 Tenderloin | 9_5248024 | 9 | 5,248,024 | 9.90E-07 | OR51T1 | Within |
 Tenderloin | 10_68490542 | 10 | 68,490,542 | 8.07E-08 | WDR37 | Within |
 Tenderloin | 10_54307891 | 10 | 54,307,891 | 1.52E-07 | PLXDC2 | Within |
 Tenderloin | 11_23214392 | 11 | 23,214,392 | 2.58E-07 | ENOX1 | 23,305 |
 Tenderloin | 17_61945735 | 17 | 61,945,735 | 3.08E-07 | COL9A3 | 129,390 |
 Hind leg bones | 17_15643442 | 17 | 15,643,442 | 4.05E-20 | BMP2 | 106,393 |
Pork cuts proportion | ||||||
 Boneless boston shoulder | 1_129573783 | 1 | 129,573,783 | 2.22E-08 | PLA2G4B | 40,385 |
 Boneless boston shoulder | 3_128528849 | 3 | 128,528,849 | 6.59E-07 | RNF144A | 218,877 |
 Boneless boston shoulder | 4_59046856 | 4 | 59,046,856 | 8.50E-07 | PEX2 | 205,481 |
 Boneless boston shoulder | 7_79346730 | 7 | 79,346,730 | 5.01E-08 | OR4K17 | 1319 |
 Boneless boston shoulder | 8_22044470 | 8 | 22,044,470 | 4.74E-07 |  |  |
 Boneless boston shoulder | 9_133440994 | 9 | 133,440,994 | 3.37E-08 | LAMB3 | 89,797 |
 Boneless boston shoulder | 10_16027531 | 10 | 16,027,531 | 4.53E-08 | CEP170 | 41,008 |
 Boneless boston shoulder | 10_1972864 | 10 | 1,972,864 | 8.34E-07 | RGS18 | 433,201 |
 Boneless boston shoulder | 13_204136763 | 13 | 204,136,763 | 2.72E-07 | DSCAM | Within |
 Boneless boston shoulder | 14_11938089 | 14 | 11,938,089 | 1.58E-09 | ELP3 | Within |
 Boneless boston shoulder | 14_2182509 | 14 | 2,182,509 | 8.90E-07 | SYK | 21,337 |
 Boneless boston shoulder | 15_45520738 | 15 | 45,520,738 | 1.21E-07 | WWC2 | 717,973 |
 Boneless boston shoulder | 18_39232070 | 18 | 39,232,070 | 4.89E-07 | BMPER | 180,768 |
 Fore leg bones | 5_59607391 | 5 | 59,607,391 | 3.80E-07 | DDX47 | 26,034 |
 Fore leg bones | 7_30253940 | 7 | 30,253,940 | 9.26E-08 | HMGA1 | 66,514 |
 Fore leg bones | 17_16478561 | 17 | 16,478,561 | 2.93E-08 | HAO1 | 265,879 |
 Ribs | 7_97596043 | 7 | 97,596,043 | 1.32E-18 | VRTN | 18,664 |
 Ribs | 7_24454624 | 7 | 24,454,624 | 7.83E-07 | NOTCH4 | 198,343 |
 Ribs | 9_133934063 | 9 | 133,934,063 | 2.87E-07 |  |  |
 Ribs | 16_2809427 | 16 | 2,809,427 | 7.97E-07 | DNAH5 | 304,852 |
 Chine bones | 4_1312897 | 4 | 1,312,897 | 2.14E-07 | LY6L | 12,946 |
 Chine bones | 7_97576486 | 7 | 97,576,486 | 3.92E-09 | VRTN | 38,221 |
 Chine bones | 7_36885255 | 7 | 36,885,255 | 8.73E-07 | TFEB | Within |
 Chine bones | 15_10051390 | 15 | 10,051,390 | 8.89E-08 | LRP1B | Within |
 Chine bones | 17_15384749 | 17 | 15,384,749 | 2.18E-07 | BMP2 | 365,086 |
 Tenderloin | 4_79051804 | 4 | 79,051,804 | 7.54E-07 | SNAI2 | 213,074 |
 Tenderloin | 10_54307891 | 10 | 54,307,891 | 2.29E-07 | PLXDC2 | Within |
 Tenderloin | 10_29167522 | 10 | 29,167,522 | 8.24E-07 | GOLM1 | Within |
 Tenderloin | 13_12587359 | 13 | 12,587,359 | 7.12E-07 | TOP2B | 11,776 |
 Hind leg bones | 4_10303912 | 4 | 10,303,912 | 4.68E-09 | ASAP1 | Within |
 Hind leg bones | 17_15643251 | 17 | 15,643,251 | 1.60E-10 | BMP2 | 106,584 |