Table 2.
The identified SNPs reached the threshold (P < 5.00 × 10−7) for DGE of growth traits in Large White pigs.
| Trait | Chr | Range of SNP (Mb) | Number of SNP | Position (bp) | n_miss | Allele | MAF | Candidate gene | P-value |
|---|---|---|---|---|---|---|---|---|---|
| dgeADG | 1 | 10.18–10.22 | 1 | 10204975 | 1 | G/C | 0.308 | ARID1B | 4.50E-07 |
| dgeADG | 9 | 45.89–45.93 | 4 | 45909385 | 1 | A/C | 0.321 | ARCN1/PHLDB1 | 3.29E-07 |
| dgeADG | 14 | 98.69–98.73 | 1 | 98711408 | 0 | A/G | 0.188 | PRKG1 | 2.05E-08 |
| dgeADG | 17 | 65.13–65.17 | 4 | 65146021 | 0 | A/G | 0.325 | 7.59E-08 | |
| dgeD100 | 2 | 14.29–14.33 | 1 | 14306048 | 0 | G/A | 0.450 | LOC110259270 | 5.99E-08 |
| dgeD100 | 2 | 130.93–130.97 | 1 | 130953920 | 3 | C/T | 0.149 | 3.60E-07 | |
| dgeD100 | 3 | 15.37–15.41 | 2 | 15390061 | 2 | G/A | 0.276 | 1.47E-07 | |
| dgeD100 | 3 | 114.26–114.30 | 2 | 114283746 | 0 | C/A | 0.350 | 2.66E-07 | |
| dgeD100 | 4 | 15.39–15.43 | 2 | 15405575 | 0 | C/T | 0.450 | 6.40E-08 | |
| dgeD100 | 7 | 124.84–124.88 | 4 | 124864925 | 0 | A/G | 0.250 | 5.76E-08 | |
| dgeD100 | 9 | 14.94–10.98 | 1 | 14961639 | 0 | A/G | 0.138 | 3.87E-07 | |
| dgeD100 | 16 | 23.20–23.23 | 6 | 23209418 | 0 | C/T | 0.100 | 3.05E-07 | |
| dgeB100 | 2 | 65.69–65.73 | 1 | 65708604 | 0 | T/A | 0.150 | CACNA1A/RF00001 | 1.78E-07 |
| dgeB100 | 3 | 116.98–117.02 | 1 | 116995212 | 4 | A/C | 0.111 | 1.04E-07 | |
| dgeB100 | 6 | 39.75–39.79 | 1 | 39767887 | 0 | G/A | 0.188 | POP4/PLEKHF1 | 1.49E-08 |
| dgeB100 | 8 | 16.42–16.46 | 1 | 16438396 | 2 | G/A | 0.474 | 2.23E-07 | |
| dgeB100 | 11 | 25.86–25.90 | 1 | 25881988 | 0 | C/G | 0.375 | ELF1 | 1.08E-07 |
| dgeB100 | 16 | 7.73–7.77 | 1 | 7746260 | 0 | T/C | 0.113 | 4.61E-07 | |
| dgeB100 | 18 | 7.78–7.82 | 1 | 7803229 | 1 | C/T | 0.103 | MGAM2/RF00026 | 1.59E-07 |
| dgeADFI | 6 | 6.49–6.53 | 1 | 6509038 | 2 | T/A | 0.145 | PLCG2 | 4.98E-07 |
| dgeADFI | 7 | 133.19–133.23 | 1 | 133206730 | 0 | T/A | 0.275 | 3.78E-07 | |
| dgeFCR | 1 | 57.25–57.29 | 2 | 57267261 | 0 | G/C | 0.125 | GABRR2 | 1.76E-07 |
| dgeFCR | 1 | 309.02–309.06 | 1 | 309043978 | 0 | G/C | 0.175 | 3.32E-07 | |
| dgeFCR | 2 | 43.99–44.03 | 1 | 44010935 | 0 | G/C | 0.362 | INSC | 2.62E-07 |
| dgeRFI | 1 | 312.93–312.97 | 2 | 312947811 | 0 | T/C | 0.350 | INVS/TEX10 | 1.57E-07 |
| dgeRFI | 1 | 242.02–242.06 | 1 | 242043203 | 0 | C/T | 0.125 | 4.53E-07 | |
| dgeRFI | 3 | 48.62–48.66 | 2 | 48636349 | 0 | T/C | 0.388 | ST6GAL2 | 2.99E-07 |
| dgeRFI | 3 | 129.68–129.72 | 1 | 129695008 | 0 | C/T | 0.263 | 6.01E-08 | |
| dgeRFI | 4 | 114.56–114.60 | 1 | 114582555 | 0 | A/T | 0.113 | 3.64E-07 | |
| dgeRFI | 6 | 150.80–150.84 | 1 | 150817328 | 0 | G/A | 0.275 | NFIA | 3.27E-07 |
| dgeRFI | 7 | 129.72–129.76 | 1 | 129741749 | 0 | A/G | 0.125 | 2.74E-07 | |
| dgeRFI | 8 | 44.17–44.21 | 1 | 44189335 | 0 | C/T | 0.312 | 3.00E-07 | |
| dgeRFI | 13 | 60.23–60.27 | 1 | 60251748 | 0 | C/A | 0.163 | 2.77E-07 | |
| dgeRFI | 16 | 43.79–43.83 | 1 | 43805766 | 0 | C/T | 0.212 | ADAMTS6 | 1.38E-07 |
Chr, Chromosome; Range, Range of significant chromosome region; Number of SNP, Number of SNP involved; Position, Position of top SNP; n_miss, number of missing values of the SNP; Alleles, Alleles of top SNP; MAF, Minor allele frequency; Candidate Gene, Gene found in the range.