Table 1. Summary and annotation of SNPs in Enshi black pigs and Chines wild boar.
| Number of SNPs | |||||
|---|---|---|---|---|---|
| Category | LCP | YTL | ZBZ | ES | Wild boar |
| 3’UTR | 54,883 | 55,078 | 55,961 | 44,505 | 52,282 |
| Intergenic | 9,925,783 | 9,934,711 | 10,260,959 | 7,823,054 | 10,327,917 |
| Splicing | 402 | 421 | 430 | 351 | 392 |
| Upstream | 115,480 | 115,907 | 117,787 | 93,785 | 108,071 |
| Exonic | |||||
| Stop gain | 231 | 231 | 244 | 183 | 221 |
| Nonsynonymous | 30,849 | 30,819 | 31,005 | 25,595 | 26,568 |
| Unknown | 1,325 | 1,312 | 1,352 | 1,133 | 1,149 |
| Synonymous | 60,015 | 60,094 | 60,111 | 50,161 | 52,160 |
| Stop loss | 43 | 42 | 44 | 38 | 41 |
| Downstream | 113,563 | 113,845 | 116,124 | 90,862 | 110,907 |
| 5’UTR | 11,869 | 12,041 | 11,920 | 10,034 | 8,700 |
| Intronic | 3,554,718 | 3,553,004 | 3,642,593 | 2,823,962 | 3,569,327 |
The package ANNOVAR was used to identify whether a SNP causes protein coding changes and the amino acids that are affected. LCP, Lvcongpo population; YTL, Yetinglu population; ZBZ, Zhongbaozhen population; Wild boar, Chinese wild boar population; ES, shared in three Enshi pig populations.