Table 3 Significant loci associated with carcass morphology traits 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 |
|---|---|---|---|---|---|---|
Straight length | 7_97579520 | 7 | 97,579,520 | 2.08E-15 | VRTN | 35,187 |
Straight length | 7_11494001 | 7 | 11,494,001 | 6.08E-07 | JARID2 | Within |
Straight length | 14_106872034 | 14 | 106,872,034 | 7.89E-07 | SORBS1 | 23,729 |
Straight length | 17_11091283 | 17 | 11,091,283 | 5.35E-08 | AP3M2 | 75,878 |
Straight length | 17_15692918 | 17 | 15,692,918 | 4.79E-36 | BMP2 | 56,917 |
Straight length | 17_21101373 | 17 | 21,101,373 | 4.17E-08 | SPTLC3 | 668,111 |
Oblique length | 7_97595573 | 7 | 97,595,573 | 4.07E-13 | VRTN | 19,134 |
Oblique length | 9_43335271 | 9 | 43,335,271 | 4.81E-07 | CADM1 | 350,392 |
Oblique length | 12_7316631 | 12 | 7,316,631 | 9.06E-08 | C17orf80 | 393,636 |
Oblique length | 14_105368901 | 14 | 105,368,901 | 6.16E-07 | SLC35G1 | 23,627 |
Oblique length | 17_15758097 | 17 | 15,758,097 | 8.54E-23 | BMP2 | Within |
Thoracic length | 7_97595573 | 7 | 97,595,573 | 2.03E-58 | VRTN | 19,134 |
Thoracic length | 14_55238487 | 14 | 55,238,487 | 3.43E-07 | NID1 | 1,165 |
Thoracic length | 17_15758097 | 17 | 15,758,097 | 4.71E-15 | BMP2 | Within |
Thoracic length | 17_19496491 | 17 | 19,496,491 | 1.12E-07 | JAG1 | 94,761 |
Thoracic length | 18_47976390 | 18 | 47,976,390 | 2.96E-07 | NPY | 9,335 |
Lumbar length | 2_14043586 | 2 | 14,043,586 | 4.50E-07 | SSRP1 | 414,353 |
Lumbar length | 3_117271220 | 3 | 117,271,220 | 6.35E-07 | APOB | Within |
Lumbar length | 7_97585410 | 7 | 97,585,410 | 5.53E-10 | VRTN | 29,297 |
Lumbar length | 14_131660585 | 14 | 131,660,585 | 5.99E-08 | TACC2 | Within |
Lumbar length | 17_15643493 | 17 | 15,643,493 | 1.22E-08 | BMP2 | 106,342 |
Single lumbar length | 6_145816008 | 6 | 145,816,008 | 5.12E-07 | SLC35D1 | 219,942 |
Single lumbar length | 6_126510205 | 6 | 126,510,205 | 5.53E-07 | PIK3C3 | 467,044 |
Single lumbar length | 17_15643442 | 17 | 15,643,442 | 3.36E-20 | BMP2 | 106,393 |
Single lumbar length | 17_57495096 | 17 | 57,495,096 | 1.05E-07 | BMP7 | 88,995 |
Single lumbar length | 17_21269115 | 17 | 21,269,115 | 1.18E-07 | BTBD3 | 390,900 |
Single lumbar length | 17_13713769 | 17 | 13,713,769 | 2.39E-07 | PRNP | 8,451 |
6th_7th rib backfat depth | 1_161160798 | 1 | 161,160,798 | 2.46E-07 | MC4R | 386,674 |
6th_7th rib backfat depth | 1_14679941 | 1 | 14,679,941 | 2.94E-07 | ESR1 | 186,578 |
6th_7th rib backfat depth | 2_7347710 | 2 | 7,347,710 | 9.21E-07 | BATF2 | 158,720 |
6th_7th rib backfat depth | 7_12752211 | 7 | 12,752,211 | 1.80E-07 | ATXN1 | 31,493 |
Waist backfat depth | 1_161834607 | 1 | 161,834,607 | 1.99E-07 | MC4R | 1,060,483 |
Waist backfat depth | 1_238788828 | 1 | 238,788,828 | 9.41E-07 | IGFBPL1 | 331,784 |
Waist backfat depth | 2_15159846 | 2 | 15,159,846 | 3.17E-07 | CELF1 | Within |
Waist backfat depth | 7_77480725 | 7 | 77,480,725 | 3.06E-07 | TRAV3 | 1205 |
Waist backfat depth | 14_36628672 | 14 | 36,628,672 | 5.19E-07 | MED13L | 244,110 |
Hip backfat depth | 2_9942614 | 2 | 9,942,614 | 8.14E-07 | SYT7 | 5311 |
Hip backfat depth | 4_10303912 | 4 | 10,303,912 | 3.20E-07 | ASAP1 | Within |
Hip backfat depth | 18_41881878 | 18 | 41,881,878 | 9.71E-07 | GHRHR | 148,632 |
Mean of backfat depth | 1_161160798 | 1 | 161,160,798 | 3.45E-07 | MC4R | 386,674 |
Mean of backfat depth | 2_7347710 | 2 | 7,347,710 | 1.23E-07 | BATF2 | 158,720 |
Mean of backfat depth | 7_12758893 | 7 | 12,758,893 | 4.05E-08 | ATXN1 | 38,175 |
Mean of backfat depth | 7_9256447 | 7 | 9,256,447 | 9.06E-07 | PHACTR1 | Within |