Table 4.
List of SNPs exceeding the genome-wise significance threshold (P = 5.45E-09) and the suggestive significance threshold (P = 5.00E-07) for the YGFW and YCWR traits
| Trait1 | Chr | Position | Ref | Alt | Candidate gene | Distance | P value | Effect |
|---|---|---|---|---|---|---|---|---|
| YGFW | 1 | 188612124 | C | A | MUC4 | intronic | 2.69E-19 | 0.31 |
| 1 | 269150914 | C | T | — | — | 3.51E-13 | 0.34 | |
| 5 | 23426107 | A | G | — | — | 1.18E-11 | -0.31 | |
| 13 | 27054774 | C | T | SEPHS1 | intergenic (dist=44369) | 2.94E-10 | 0.34 | |
| 1 | 196961811 | A | G | LPP | intronic | 7.91E-10 | 0.22 | |
| 17 | 68414934 | G | T | ZMAT5 | intronic | 1.36E-09 | -0.19 | |
| 4 | 87989420 | C | G | WASL | intronic | 1.67E-09 | 0.21 | |
| 1 | 67506930 | A | G | ZNF644 | intronic | 2.58E-09 | -0.28 | |
| 1 | 85049097 | A | G | FAM102B | intronic | 3.97E-09 | -0.41 | |
| 8 | 25217533 | G | A | LOC105609598 | ncRNA_intronic | 6.98E-09 | 0.24 | |
| 13 | 38899880 | G | A | CFAP61 | intronic | 1.47E-08 | -0.25 | |
| 4 | 77762584 | G | C | HECW1 | intronic | 1.61E-08 | 0.18 | |
| 14 | 11297683 | T | C | IRF8 | intronic | 6.74E-08 | 0.22 | |
| 13 | 7921804 | T | C | MACROD2 | intronic | 9.04E-08 | -0.23 | |
| 22 | 38670661 | G | A | BAG3 | upstream (dist=597) | 1.26E-07 | 0.27 | |
| 5 | 1100634 | T | C | C5H5orf45 | intronic | 1.30E-07 | 0.27 | |
| 9 | 94074802 | C | T | COL14A1, MRPL13 | intergenic (dist=5227, dist=10886) | 1.76E-07 | 0.23 | |
| 5 | 83206038 | C | A | — | — | 2.28E-07 | -0.36 | |
| 21 | 18809253 | C | T | — | — | 2.61E-07 | 0.39 | |
| 2 | 220658191 | G | A | — | — | 3.21E-07 | -0.38 | |
| 11 | 5170923 | G | T | LOC105606925, HLF | intergenic (dist=45751, dist=19483) | 4.71E-07 | -0.23 | |
| YCFR | 1 | 142555360 | G | T | ROBO2 | Intronic | 1.22E-08 | -2.27 |
| 19 | 28423809 | C | T | PDZRN3 | intergenic (dist=4107) | 2.87E-08 | -2.08 | |
| 6 | 113475592 | T | C | AFAP1 | Intronic | 3.01E-08 | 1.84 | |
| 3 | 67874237 | A | G | — | — | 3.76E-08 | 3.74 | |
| 9 | 59105226 | T | A | EXT1 | Intronic | 1.24E-07 | 4.29 | |
| 20 | 2784078 | A | G | PRIM2 | Intronic | 1.25E-07 | 3.32 | |
| 11 | 25670079 | T | G | DERL2, DHX33 | intergenic (dist=5783, dist=2829) | 1.38E-07 | -3.04 | |
| 3 | 59617099 | C | T | IL1RN, IL1F10 | intergenic (dist=28452, dist=21619) | 1.39E-07 | 2.71 | |
| 20 | 2784141 | A | C | PRIM2 | Intronic | 1.46E-07 | 3.62 | |
| 17 | 62088000 | A | G | CCDC64 | Intronic | 1.61E-07 | -1.89 | |
| 3 | 59652444 | A | G | IL1F10 | Intronic | 1.68E-07 | 2.76 | |
| 1 | 183909699 | G | A | STXBP5L | Intronic | 2.02E-07 | 2.32 | |
| 1 | 183909695 | A | G | STXBP5L | Intronic | 2.49E-07 | 2.32 | |
| 23 | 40010684 | G | A | — | — | 2.55E-07 | -1.77 | |
| 17 | 68219473 | C | T | NEFH | UTR3 | 2.63E-07 | 2.05 | |
| 20 | 3348869 | C | G | BEND6 | intergenic (dist=26031) | 2.85E-07 | -2.86 | |
| 20 | 3348874 | G | C | BEND6 | intergenic (dist=26036) | 2.85E-07 | -2.86 | |
| 2 | 234131875 | C | T | ZBTB8A | Intronic | 2.90E-07 | -3.56 | |
| 6 | 69923844 | C | T | — | — | 3.16E-07 | -2.44 | |
| 23 | 9368217 | G | A | — | — | 3.25E-07 | -3.29 | |
| 18 | 27749841 | C | G | TARSL2 | intergenic (dist=48020) | 3.31E-07 | -2.66 | |
| 18 | 17758342 | T | G | — | — | 3.66E-07 | 1.82 | |
| 20 | 2784118 | C | T | PRIM2 | intronic | 3.70E-07 | 2.94 | |
| 18 | 27894106 | A | G | TM2D3 | intergenic (dist=36225) | 3.92E-07 | -2.17 | |
| 3 | 67897772 | G | A | — | — | 4.61E-07 | 3.69 | |
| 9 | 38397717 | C | A | — | — | 4.68E-07 | -2.60 | |
| 3 | 28449359 | A | G | LDAH | intergenic (dist=35449) | 4.82E-07 | -3.35 | |
| 3 | 77756128 | C | T | EPAS1 | intronic | 4.83E-07 | -2.35 | |
| 1 | 123177590 | G | A | KRTAP6-1 | intergenic (dist=29165) | 4.87E-07 | -3.21 | |
| 1 | 126462294 | G | A | — | — | 5.00E-07 | -3.64 |
1YGFW, yearling clean fleece weight; YCFR, yearling clean fleece rate; Distance, The base distance between the significant site and the candidate gene.