Table 3.
Genomic regions and corresponding lead SNPs identified by single- and multi-locus GWAS for levels of IP.
| Lead SNP | SSC1 | SNP position | 95% confidence interval (Mb)2 | –log10 (P-value) | Bayes factor | MAF3 | % Var4 |
|---|---|---|---|---|---|---|---|
| M1GA0000151 | 1 | 887856 | 0.888 ± 0.003 | 4.44 | 4.27 | 0.246 | 1.6 |
| ASGA0106092 | 1 | 109579245 | 109.579 ± 0.002 | 5.04 | 5.26 | 0.272 | 1.9 |
| MARC0015485 | 1 | 110706305 | 110.707 ± 0.002 | 5.89 | 5.30 | 0.130 | 2.2 |
| ASGA0103590 | 2 | 41032321 | 41.033 ± 0.001 | 4.38 | 8.96 | 0.414 | 1.6 |
| ASGA0083196 | 3 | 21735144 | 21.734 ± 0.005 | 3.86 | 16.43 | 0.248 | 1.4 |
| ASGA0026923 | 5 | 96278945 | 96.280 ± 0.002 | 3.28 | 12.22 | 0.265 | 1.2 |
| ALGA0036329 | 6 | 109768450 | 109.768 ± 0.001 | 4.82 | 27.32 | 0.435 | 1.8 |
| ASGA0090429 | 6 | 109873081 | 109.875 ± 0.005 | 5.24 | 14.22 | 0.491 | 2.0 |
| ASGA0094586 | 6 | 114804166 | 114.802 ± 0.004 | 4.45 | 1.96 | 0.341 | 1.6 |
| ALGA0054999 | 9 | 121587586 | 121.589 ± 0.003 | 4.39 | 3.65 | 0.111 | 1.6 |
| SIRI0000950 | 14 | 11099200 | 11.100 ± 0.000 | 4.74 | 6.19 | 0.352 | 1.7 |
| ALGA0077099 | 14 | 40117526 | 40.104 ± 0.026 | 6.24 | 4.61 | 0.489 | 2.4 |
| M1GA0018562 | 14 | 40465628 | 40.807 ± 0.342 | 5.58 | 3.03 | 0.461 | 2.1 |
| ALGA0088210 | 15 | 134132243 | 134.133 ± 0.001 | 4.89 | 7.26 | 0.406 | 1.8 |
1Sus scrofa chromosome; 2Calculated according to Li’s method (Li, 2011); 3Minor allele frequency; 4Explained proportion of the phenotypic variance by the lead SNP.