Table 1.
Genome-wide association studies (GWAS)-identified significant single-nucleotide polymorphisms (SNPs), associated traits, and nearest candidate genes.
| Traits | Chr | Position (bp) | MAF | −log10 (p-Value) | Distance (bp) | Gene | Variant Effect |
|---|---|---|---|---|---|---|---|
| birth weight | ch1 | 253212365 | 0.10 | 6.111011551 | −19101 | SLCO2A1 | intergenic |
| ch9 | 14382214 | 0.49 | 7.664224268 | −2084 | LY6K | intergenic | |
| ch9 | 90030866 | 0.15 | 6.323004957 | −26215 | RALYL | intergenic | |
| ch12 | 52839429 | 0.50 | 10.45675318 | 0 | AADACL3 | intronic | |
| ch17 | 39807635 | 0.06 | 6.65587487 | 0 | C17H4orf45 | intronic | |
| ch25 | 13791395 | 0.48 | 6.006388368 | −17811 | BICC1 | intergenic | |
| ch27 | 6893599 | 0.16 | 8.797304666 | 10577 | GPR143 | intergenic | |
| ch27 | 7049963 | 0.15 | 8.355957873 | 0 | SHROOM2 | intronic | |
| weaning weight | ch1 | 101447761 | 0.21 | 6.814810126 | 7370 | C1H1orf68 | intergenic |
| ch1 | 118783826 | 0.50 | 12.06478576 | −16239 | CLIC6 | intergenic | |
| ch3 | 118519704 | 0.07 | 6.007008521 | 0 | TMTC2 | intronic | |
| ch20 | 26410829 | 0.50 | 27.43388012 | −16968 | STK19 | intergenic | |
| ch20 | 26410829 | 0.50 | 27.43388012 | −25619 | DXO | intergenic | |
| ch20 | 26410829 | 0.50 | 27.43388012 | −27940 | SKIV2L | intergenic | |
| ch24 | 35415932 | 0.49 | 11.41651058 | −19192 | NAT16 | intergenic | |
| ch24 | 35415932 | 0.49 | 11.41651058 | −28975 | VGF | intergenic | |
| ch27 | 6892015 | 0.21 | 8.574556919 | 8993 | GPR143 | intergenic | |
| ch27 | 6892015 | 0.21 | 8.574556919 | −87231 | SHROOM2 | intergenic | |
| yearling weight | ch1 | 51280492 | 0.50 | 7.90882916 | −29110 | RABGGTB | intergenic |
| ch1 | 96929132 | 0.50 | 7.121270413 | 29522 | TRNAQ-CUG | intronic | |
| ch1 | 96929132 | 0.50 | 7.121270413 | 27565 | TRNAN-GUU | intronic | |
| ch1 | 101447761 | 0.21 | 6.206583675 | 7370 | C1H1orf68 | intergenic | |
| ch5 | 13636592 | 0.11 | 6.080914687 | 17967 | ZNF557 | intergenic | |
| ch13 | 1884594 | 0.35 | 6.049430267 | 0 | PLCB4 | intronic | |
| ch23 | 33324859 | 0.50 | 8.093591468 | 0 | NPC1 | intronic | |
| ch23 | 33324859 | 0.50 | 8.093591468 | −16422 | C23H18orf8 | intronic | |
| ch23 | 52260021 | 0.12 | 6.009205597 | 0 | DCC | intronic | |
| ch25 | 12802212 | 0.50 | 7.554054255 | −22550 | ZNF25 | intergenic | |
| ch27 | 7053187 | 0.19 | 7.464649666 | 170165 | GPR143 | intronic | |
| ch27 | 7053187 | 0.19 | 7.464649666 | 0 | SHROOM2 | intronic | |
| adult weight | ch2 | 206466290 | 0.06 | 6.642091631 | 0 | PARD3B | intronic |
| ch3 | 4796131 | 0.09 | 6.34382137 | 0 | MED27 | intronic | |
| ch18 | 57956306 | 0.11 | 6.049410169 | 24508 | SERPINA14 | intergenic | |
| ch18 | 57956306 | 0.11 | 6.049410169 | −4231 | SERPINA12 | intergenic | |
| ch27 | 6743376 | 0.05 | 7.929222061 | 0 | TBL1X | intronic | |
| ch27 | 6997506 | 0.19 | 6.124895773 | 0 | SHROOM2 | intronic |
Chr: chromosome; MAF: minor allele frequency; Variant effect: SNP effect on the gene.