Table 1 List of suggestive candidate genes associated with six body size traits in Simmental beef cattle
Genes | Related SNPs | BTA | Position (bp) | MAF | Distance (bp) | p value | Associated traits |
|---|---|---|---|---|---|---|---|
P2RY1 | BovineHD0100032742 | 1 | 115,755,082 | 0.40 | 79,694 | 9.51E-06 | LONG-BH |
BovineHD0100032742 | 1 | 115,755,082 | 0.40 | 79,694 | 1.54E-06 | LONG-HH | |
BovineHD0100032742 | 1 | 115,755,082 | 0.40 | 79,694 | 9.75E-06 | LONG-CS | |
BovineHD0100032745 | 1 | 115,763,334 | 0.40 | 71,442 | 1.99E-06 | LONG-HH | |
SLC37A1 | BovineHD0100041625 | 1 | 144,414,936 | 0.24 | within | 7.32E-08 | multi-trait18 |
BovineHD0100041630 | 1 | 144,426,364 | 0.24 | within | 7.32E-08 | multi-trait18 | |
SOX2 | BTB-00037008 | 1 | 86,134,439 | 0.21 | 200,052 | 8.34E-06 | single-trait CS18 |
Hapmap44647-BTA-38494 | 1 | 86,087,819 | 0.19 | 153,432 | 3.58E-06 | single-trait CS18 | |
SNRPD1 | BovineHD0200014364 | 2 | 49,864,811 | 0.20 | 128,412 | 9.22E-06 | single-trait HS18 |
BovineHD0200014365 | 2 | 49,865,504 | 0.25 | 129,105 | 2.11E-08 | single-trait HS18 | |
BovineHD0200014365 | 2 | 49,865,504 | 0.24 | 129,105 | 4.06E-08 | multi-trait18 | |
MPZL1 | BovineHD0300000230 | 3 | 966,159 | 0.38 | within | 7.60E-06 | LONG-BL |
BTA-68271-no-rs | 3 | 970,386 | 0.42 | within | 8.93E-07 | LONG-BH | |
BTA-68271-no-rs | 3 | 970,386 | 0.42 | within | 6.64E-06 | LONG-HH | |
PCDH7 | BovineHD0600014096 | 6 | 51,063,986 | 0.00 | 472,877 | 4.90E-08 | multi-trait6 |
RASGEF1B | BovineHD0600027173 | 6 | 97,864,370 | 0.15 | 125,438 | 8.09E-06 | single-trait HS12 |
BovineHD0600027180 | 6 | 97,871,595 | 0.15 | 118,213 | 4.49E-06 | single-trait HS12 | |
BovineHD0600027330 | 6 | 98,320,692 | 0.10 | 306,357 | 9.24E-06 | single-trait HH6 | |
LAP3 | Hapmap26308-BTC-057761 | 6 | 38,576,012 | 0.39 | within | 1.94E-08 | multi-trait12 |
PTBP1 | BovineHD0700012966 | 7 | 45,003,982 | 0.02 | 12,339 | 3.90E-07 | single-trait HH6 |
BovineHD0700012966 | 7 | 45,003,982 | 0.02 | 12,339 | 7.42E-06 | single-trait BH6 | |
BovineHD0700012966 | 7 | 45,003,982 | 0.02 | 12,339 | 8.23E-13 | multi-trait6 | |
EFNA5 | BovineHD0700034055 | 7 | 107,333,030 | 0.00 | 1,716,560 | 1.84E-06 | single-trait HS12 |
BovineHD0700034055 | 7 | 107,333,030 | 0.00 | 1,716,560 | 7.68E-06 | single-trait AS12 | |
LINGO2 | BTB-01533287 | 8 | 15,773,921 | 0.31 | 495,444 | 7.98E-06 | LONH-HS |
MANEA | BovineHD0900015135 | 9 | 55,157,981 | 0.01 | within | 5.01E-08 | multi-trait6 |
BovineHD0900015139 | 9 | 55,177,601 | 0.01 | within | 5.01E-08 | multi-trait6 | |
SNX9 | BovineHD0900027283 | 9 | 95,932,814 | 0.23 | within | 5.18E-06 | single-trait BL12 |
SV2C | BovineHD1000002378 | 10 | 7,434,970 | 0.35 | within | 4.16E-07 | single-trait BH6 |
BovineHD1000002378 | 10 | 7,434,970 | 0.35 | within | 2.99E-09 | multi-trait6 | |
BovineHD1000002381 | 10 | 7,437,227 | 0.14 | within | 5.96E-08 | multi-trait6 | |
PKDCC | BovineHD1100007360 | 11 | 24,440,415 | 0.30 | 89,224 | 2.65E-06 | single-trait HS12 |
BovineHD1100007363 | 11 | 24,458,336 | 0.30 | 71,303 | 4.35E-06 | single-trait HS12 | |
BovineHD1100007368 | 11 | 24,473,651 | 0.49 | 55,988 | 3.84E-06 | single-trait HS12 | |
BovineHD1100007368 | 11 | 24,473,651 | 0.50 | 55,988 | 2.88E-08 | multi-trait12 | |
BovineHD4100008641 | 11 | 24,432,416 | 0.29 | 97,223 | 4.62E-06 | single-trait HS12 | |
LHCGR | BovineHD1100009199 | 11 | 30,836,078 | 0.42 | within | 2.57E-08 | multi-trait12 |
BovineHD1100009205 | 11 | 30,849,406 | 0.43 | within | 4.07E-08 | multi-trait12 | |
BovineHD1100009208 | 11 | 30,866,881 | 0.43 | within | 4.62E-08 | multi-trait12 | |
BovineHD1100009211 | 11 | 30,880,359 | 0.43 | within | 4.07E-08 | multi-trait12 | |
SYNDIG1 | BovineHD1300012489 | 13 | 42,903,665 | 0.43 | 10,485 | 1.06E-06 | single-trait BH18 |
BovineHD1300012489 | 13 | 42,903,665 | 0.43 | 10,485 | 6.31E-08 | multi-trait18 | |
AKR1E2 | ARS-BFGL-NGS-5872 | 13 | 44,206,849 | 0.49 | within | 4.17E-09 | multi-trait18 |
BovineHD1300012890 | 13 | 44,187,504 | 0.50 | 16,132 | 3.20E-09 | multi-trait18 | |
BovineHD1300012891 | 13 | 44,188,743 | 0.50 | 14,893 | 4.89E-09 | multi-trait18 | |
BovineHD1300012894 | 13 | 44,201,625 | 0.46 | 2011 | 8.08E-06 | single-trait AS18 | |
BovineHD1300012894 | 13 | 44,201,625 | 0.47 | 2011 | 3.84E-10 | multi-trait18 | |
BovineHD1300012895 | 13 | 44,202,958 | 0.50 | 678 | 4.65E-08 | multi-trait18 | |
BovineHD1300012896 | 13 | 44,203,607 | 0.50 | 29 | 6.37E-09 | multi-trait18 | |
BovineHD1300012899 | 13 | 44,205,509 | 0.50 | within | 2.75E-09 | multi-trait18 | |
BovineHD1300012900 | 13 | 44,206,016 | 0.49 | within | 4.18E-09 | multi-trait18 | |
BovineHD1300012903 | 13 | 44,209,748 | 0.50 | within | 2.75E-09 | multi-trait18 | |
BovineHD1300012905 | 13 | 44,211,339 | 0.49 | within | 2.62E-08 | multi-trait18 | |
BovineHD1300012906 | 13 | 44,212,364 | 0.49 | within | 3.11E-09 | multi-trait18 | |
BovineHD1300012907 | 13 | 44,213,101 | 0.48 | within | 5.66E-09 | multi-trait18 | |
BovineHD1300012909 | 13 | 44,217,192 | 0.48 | 2915 | 2.63E-08 | multi-trait18 | |
CMIP | BovineHD1800002818 | 18 | 8,171,554 | 0.48 | 39,261 | 5.92E-06 | LONG-HH |
BovineHD1800002831 | 18 | 8,197,531 | 0.43 | 13,284 | 6.66E-06 | LONG-HH | |
BovineHD1800002834 | 18 | 8,200,906 | 0.43 | 9909 | 5.72E-06 | LONG-HH | |
BovineHD1800002837 | 18 | 8,203,446 | 0.43 | 7369 | 4.87E-06 | LONG-HH | |
WSCD1 | BovineHD1900007802 | 19 | 26,316,747 | 0.37 | 31,164 | 5.47E-06 | LONG-CS |
PRIM2 | ARS-BFGL-NGS-59707 | 23 | 2,570,211 | 0.36 | within | 6.65E-06 | single-trait HH18 |
BovineHD2300000488 | 23 | 2,589,039 | 0.36 | within | 8.16E-06 | single-trait HH18 |