Table 5 Single nucleotide polymorphisms (SNPs) significantly associated with transmitting abilities (TAs) as sire estimated for net body weight (BW) gain, carcass muscularity and carcass fatness. The TAs for carcass muscularity and carcass fatness were generated using a linear (subscript L) and a threshold model (subscript T). The estimated SNP effects are provided with standard errors (se) and p-values. Their base pair (bp) positions on chromosomes (chr) and known genes are indicated.
From: Scanning the genomes of parents for imprinted loci acting in their un-genotyped progeny
trait | SNP | effect | se | p-value | chr | bp | gene |
|---|---|---|---|---|---|---|---|
Muscularity(L) | BTB-00429961 | −1.2325 | 0.2099 | 4.3065e-09*** | 10 | 56093653 | UNC13C |
ARS-BFGL-NGS-21100 | −1.2186 | 0.2098 | 6.2669e-09*** | 10 | 56116909 | UNC13C | |
BTB-01911175 | 1.2083 | 0.2100 | 8.7539e-09*** | 10 | 56140822 | UNC13C | |
BTB-00430730 | 1.1607 | 0.2118 | 4.2323e-08*** | 10 | 55535781 | ||
Hapmap51030-BTA-69263 | 1.2283 | 0.2521 | 1.0970e-06*** | 10 | 52190618 | AQP9 | |
Hapmap50767-BTA-72346 | 1.2731 | 0.2852 | 8.0751e-06*** | 10 | 60145660 | HDC | |
ARS-BFGL-NGS-24556 | −0.8659 | 0.2029 | 1.9888e-05** | 10 | 51980270 | ||
Hapmap36252-SCAFFOLD195517_10504 | −1.0007 | 0.2352 | 2.0960e-05** | 10 | 58707718 | TMOD2 | |
ARS-BFGL-NGS-27708 | −0.8953 | 0.2105 | 2.1071e-05** | 10 | 55510249 | ||
Hapmap58597-rs29013533 | −0.8634 | 0.2049 | 2.5192e-05** | 10 | 58097440 | ||
BTB-01125630 | 1.5872 | 0.3834 | 3.4723e-05** | 10 | 57912228 | ||
Hapmap59786-rs29012019 | −0.8747 | 0.2123 | 3.7975e-05** | 10 | 55611885 | ||
ARS-USMARC-Parent-DQ984827-rs29012019 | −0.8721 | 0.2121 | 3.9402e-05** | 10 | 55611885 | ||
ARS-BFGL-NGS-114479 | 1.1821 | 0.2798 | 2.3777e-05** | 16 | 33402551 | ||
ARS-BFGL-NGS-40515 | −0.9244 | 0.2048 | 6.3823e-06*** | 23 | 10593430 | ||
Fatness(L) | ARS-BFGL-NGS-67309 | 0.0240 | 0.0057 | 2.5727e-05*** | 2 | 114710664 | |
ARS-BFGL-NGS-38020 | 0.0328 | 0.0052 | 2.9461e-10*** | 5 | 29264678 | ||
Hapmap39353-BTA-73120 | −0.0335 | 0.0055 | 7.9597e-10*** | 5 | 27777281 | ||
ARS-BFGL-NGS-53461 | 0.0292 | 0.0052 | 1.7002e-08*** | 5 | 30659497 | TROAP | |
ARS-BFGL-NGS-91751 | −0.0332 | 0.0059 | 1.9337e-08*** | 5 | 28573792 | ||
ARS-BFGL-NGS-92420 | 0.0293 | 0.0053 | 2.5670e-08*** | 5 | 33078266 | ||
ARS-BFGL-NGS-30168 | 0.0266 | 0.0054 | 8.8196e-07*** | 5 | 111313740 | SYNGR1 | |
ARS-BFGL-NGS-98156 | 0.0255 | 0.0053 | 1.5540e-06*** | 5 | 27869236 | ||
Hapmap42150-BTA-25138 | −0.0257 | 0.0054 | 2.2840e-06*** | 5 | 32819286 | ||
ARS-USMARC-675 | 0.0410 | 0.0087 | 2.5085e-06*** | 5 | 31164990 | ADCY6 | |
Hapmap51043-BTA-73218 | 0.0230 | 0.0049 | 2.8574e-06*** | 5 | 29622395 | LARP4 | |
ARS-BFGL-NGS-107085 | −0.0330 | 0.0071 | 2.9176e-06*** | 5 | 28660813 | BIN2 | |
ARS-BFGL-NGS-112542 | 0.0288 | 0.0063 | 4.0947e-06*** | 5 | 30159843 | FAIM2 | |
BTA-72978-no-rs | −0.0274 | 0.0060 | 4.2470e-06*** | 5 | 25699752 | NCKAP1L | |
Hapmap23022-BTA-161235 | −0.0245 | 0.0053 | 4.2916e-06*** | 5 | 31613026 | ||
ARS-USMARC-629 | 0.0310 | 0.0068 | 5.6301e-06*** | 5 | 25738874 | GTSF1 | |
ARS-USMARC-657 | 0.0281 | 0.0062 | 5.8398e-06*** | 5 | 45834943 | IFNG | |
BTA-73209-no-rs | 0.0230 | 0.0051 | 6.6548e-06*** | 5 | 29496625 | DIP2B | |
ARS-BFGL-NGS-68582 | −0.0251 | 0.0056 | 7.7038e-06*** | 5 | 111380409 | ||
ARS-BFGL-NGS-717 | 0.0240 | 0.0055 | 1.0656e-05*** | 5 | 32861996 | ||
ARS-BFGL-NGS-7725 | −0.0220 | 0.0051 | 1.3210e-05*** | 5 | 27839649 | KRT7 | |
BTA-73392-no-rs | 0.0243 | 0.0056 | 1.4981e-05*** | 5 | 32104484 | ||
ARS-BFGL-NGS-8796 | 0.0227 | 0.0054 | 2.9035e-05*** | 5 | 29095603 | ||
ARS-USMARC-652 | 0.0282 | 0.0069 | 4.0453e-05** | 5 | 45807839 | ||
BTA-28787-no-rs | 0.0221 | 0.0054 | 4.4479e-05** | 5 | 37925443 | ||
ARS-BFGL-NGS-11851 | 0.0226 | 0.0055 | 4.5188e-05** | 5 | 32426908 | ||
UA-IFASA-2781 | 0.0218 | 0.0054 | 5.3496e-05** | 5 | 29989860 | ASIC1 | |
ARS-BFGL-NGS-43909 | −0.0282 | 0.0070 | 5.4350e-05** | 5 | 30879776 | ||
Hapmap55179-rs29024483 | 0.0231 | 0.0055 | 2.9496e-05*** | 13 | 38830375 | DZANK1 | |
Hapmap55095-rs29010810 | 0.0260 | 0.0065 | 7.0403e-05** | 13 | 27589301 | ||
ARS-BFGL-NGS-4866 | −0.0317 | 0.0079 | 5.3215e-05** | 16 | 50095343 | ||
ARS-BFGL-NGS-18515 | 0.0231 | 0.0055 | 2.2798e-05*** | 19 | 29219211 | NTN1 |
