Table 3 Information for all significant SNP related to body size and carcass traits
Trait | Nbsnp | Chr | Position (ps) | AF | Beta | p-value | Var (%) | Candidate gene | Distance |
|---|---|---|---|---|---|---|---|---|---|
BMW | 2 | 3 | 11,176,648 | 0.276 | −2.55E-01 | 2.53E-05 | 4.1 | TMEM17 | 7442 bp upstream |
10 | 1,656,050 | 0.366 | −2.35E-01 | 2.96E-05 | 4.1 | LOC101804888 | 11,627 bp downstream | ||
BMWP | 3 | 1 | 867,910 | 0.45 | 2.56E-01 | 3.18E-06 | 8.1 | LOC101803092 | within |
1 | 47,950,429 | 0.397 | −2.39E-01 | 6.71E-06 | 6.9 | ATP2B1 | 107,815 bp upstream | ||
1 | 47,950,615 | 0.402 | −2.31E-01 | 1.82E-05 | 6.4 | ATP2B1 | 107,629 bp upstream | ||
BrW | 4 | 2 | 19,666,206 | 0.479 | −2.39E-01 | 1.45E-05 | 9.8 | PLXDC2 | 5029 bp downstream |
2 | 24,791,499 | 0.362 | −2.60E-01 | 7.69E-06 | 10.8 | LOC101799835 | within | ||
6 | 31,223,243 | 0.369 | 2.22E-01 | 2.14E-05 | 7.9 | WDR11 | 29,320 bp upstream | ||
21 | 1,548,509 | 0.427 | 2.31E-01 | 2.59E-05 | 9 | EYA2 | 28,420 bp downstream | ||
BW42 | 5 | 1 | 85,234,035 | 0.455 | −2.29E-01 | 1.12E-05 | 4.1 | LOC101789880 | within |
1 | 140,105,435 | 0.305 | −2.64E-01 | 1.20E-07 | 4.6 | ATP11A | within | ||
1 | 140,105,568 | 0.47 | 2.16E-01 | 6.54E-06 | 3.6 | ATP11A | within | ||
2 | 19,666,336 | 0.229 | −2.29E-01 | 2.25E-05 | 2.9 | PLXDC2 | 5159 bp downstream | ||
28 | 3,372,077 | 0.024 | −6.23E-01 | 3.16E-05 | 2.8 | LOC101803004 | 1892 bp downstream | ||
DP | 2 | 1 | 7,468,875 | 0.358 | 2.22E-01 | 1.07E-05 | 4.9 | GRM3 | 121,336 bp downstream |
6 | 33,060,881 | 0.368 | 2.35E-01 | 3.09E-06 | 5.6 | CTBP2 | 30,880 bp downstream | ||
DW | 8 | 1 | 63,206,125 | 0.395 | −2.41E-01 | 1.75E-05 | 4.6 | CACNA1C | within |
1 | 85,234,035 | 0.455 | −2.28E-01 | 7.68E-06 | 4.3 | LOC101789880 | within | ||
1 | 140,105,435 | 0.305 | −2.55E-01 | 1.65E-07 | 4.6 | ATP11A | within | ||
1 | 140,105,568 | 0.47 | 2.06E-01 | 9.97E-06 | 3.5 | ATP11A | within | ||
1 | 141,660,288 | 0.44 | 2.05E-01 | 1.72E-05 | 3.4 | LOC101802568 | 26,100 bp downstream | ||
1 | 158,535,990 | 0.35 | −2.14E-01 | 1.54E-05 | 3.5 | KLF5 | 44,712 bp upstream | ||
2 | 19,666,336 | 0.229 | −2.40E-01 | 5.01E-06 | 3.4 | PLXDC2 | 5159 bp downstream | ||
28 | 3,372,077 | 0.024 | −6.41E-01 | 1.46E-05 | 3.2 | LOC101803004 | 1892 bp downstream | ||
EW | 6 | 1 | 63,206,125 | 0.395 | −2.47E-01 | 1.51E-05 | 5 | CACNA1C | within |
1 | 140,105,435 | 0.305 | −2.65E-01 | 1.02E-07 | 5.1 | ATP11A | within | ||
1 | 140,105,568 | 0.47 | 2.02E-01 | 2.52E-05 | 3.5 | ATP11A | within | ||
1 | 158,535,990 | 0.35 | −2.22E-01 | 1.15E-05 | 3.9 | KLF5 | 44,712 bp upstream | ||
2 | 19,666,336 | 0.229 | −2.32E-01 | 1.65E-05 | 3.3 | PLXDC2 | 5159 bp downstream | ||
28 | 3,372,077 | 0.024 | −6.37E-01 | 2.02E-05 | 3.3 | LOC101803004 | 1892 bp downstream | ||
EWP | 4 | 2 | 35,813,875 | 0.372 | −2.27E-01 | 2.74E-05 | 5.5 | CHN2 | within |
3 | 89,970,339 | 0.313 | −2.24E-01 | 2.59E-05 | 4.9 | LGSN | 57,852 bp downstream | ||
13 | 17,512,359 | 0.391 | −2.18E-01 | 1.02E-05 | 5.1 | FOXP1 | 2160 bp downstream | ||
18 | 5,703,171 | 0.433 | 2.29E-01 | 8.74E-06 | 5.8 | PPP1R26 | 37,536 bp upstream | ||
FBL | 3 | 2 | 40,157,075 | 0.49 | 2.44E-01 | 1.50E-05 | 6.6 | OXSM | 15,327 bp downstream |
2 | 52,398,515 | 0.419 | 2.40E-01 | 1.13E-05 | 6.2 | TNS3 | within | ||
2 | 137,295,017 | 0.372 | −2.18E-01 | 3.17E-05 | 5 | TMEM74 | 1377 bp upstream | ||
FW | 2 | 1 | 148,339,868 | 0.018 | 7.08E-01 | 7.73E-06 | 3.2 | ABCC4 | within |
4 | 59,568,289 | 0.02 | 6.09E-01 | 1.62E-05 | 2.6 | LDB2 | 17,964 bp downstream | ||
HEW | 6 | 1 | 63,206,125 | 0.395 | −2.46E-01 | 1.85E-05 | 5 | CACNA1C | within |
1 | 140,105,435 | 0.305 | −2.72E-01 | 5.27E-08 | 5.4 | ATP11A | within | ||
1 | 140,105,568 | 0.47 | 2.06E-01 | 1.98E-05 | 3.6 | ATP11A | within | ||
1 | 158,535,990 | 0.35 | −2.24E-01 | 1.02E-05 | 3.9 | KLF5 | 44,712 bp upstream | ||
2 | 19,666,336 | 0.229 | −2.35E-01 | 1.38E-05 | 3.4 | PLXDC2 | 5159 bp downstream | ||
28 | 3,372,077 | 0.024 | −6.28E-01 | 2.95E-05 | 3.2 | LOC101803004 | 1892 bp downstream | ||
HEWP | 2 | 1 | 196,705,092 | 0.357 | 2.18E-01 | 2.95E-05 | 5.1 | LOC101797437 | 5799 bp downstream |
13 | 17,512,359 | 0.391 | −2.12E-01 | 2.27E-05 | 5 | FOXP1 | 2160 bp downstream | ||
HW | 4 | 1 | 158,535,990 | 0.35 | −2.53E-01 | 2.06E-06 | 8.6 | KLF5 | 44,712 bp upstream |
3 | 64,428,149 | 0.434 | 2.29E-01 | 8.58E-06 | 7.6 | GJA1 | 14,583 bp downstream | ||
5 | 22,865,850 | 0.351 | 2.30E-01 | 6.43E-06 | 7.1 | AQR | 11,077 bp upstream | ||
7 | 11,397,351 | 0.312 | −2.35E-01 | 2.62E-05 | 7 | PCNT | within | ||
LW | 5 | 1 | 119,976,059 | 0.407 | −2.12E-01 | 1.31E-05 | 3.6 | LOC101803212 | 13,772 bp downstream |
1 | 34,185,127 | 0.242 | −2.24E-01 | 2.47E-05 | 3.1 | PPM1H | within | ||
4 | 427,963 | 0.473 | 2.19E-01 | 9.55E-06 | 4 | LOC101798797 | 148,591 bp downstream | ||
4 | 59,555,379 | 0.016 | 6.79E-01 | 3.37E-05 | 2.4 | LDB2 | 4954 bp downstream | ||
8 | 23,698,948 | 0.419 | 2.21E-01 | 2.95E-05 | 4 | AGBL4 | within | ||
LMWP | 1 | 20 | 2,198,171 | 0.385 | −2.40E-01 | 2.73E-05 | 3 | AUTS2 | 30,531 bp downstream |
NL | 1 | 1 | 130,709,943 | 0.354 | −2.01E-01 | 2.79E-05 | 4.4 | XG | within |
WW | 2 | 1 | 140,105,435 | 0.305 | −2.44E-01 | 6.49E-07 | 4.4 | ATP11A | within |
2 | 149,672,484 | 0.015 | 8.53E-01 | 2.67E-05 | 3.8 | FAM135B | 33,375 bp downstream |