Table 3. SNPs for HTDMYslope and THIslope validated in the Jersey data set and their effects in the discovery and validation data set.
F-value | Effect discovery | |||||||
Marker Name | Chr | Position | Discovery | Holstein validation | Jersey Validation | Discovery | Holstein validation | Jersey Validation |
HTDMYslope | ||||||||
*BFGL-NGS-14740 | 9 | 13958461 | 14.0 | 7.3 | −0.42 | −0.26 | ||
BTB-02047616 | 9 | 32690344 | 13.5 | 3.9 | 6.5 | 0.43 | 0.21 | 0.28 |
BFGL-NGS-106238 | 9 | 33261215 | 10.9 | 4.4 | −0.39 | −0.21 | ||
BTA-112863-no-rs | 9 | 34602197 | 13.1 | 5.4 | −0.42 | −0.31 | ||
BTB-00384830 | 9 | 35241353 | 15.2 | 6.7 | −0.47 | −0.27 | ||
BFGL-NGS-2259 | 9 | 38045164 | 14.0 | 9.3 | 0.43 | 0.30 | ||
BFGL-NGS-170 | 9 | 45345901 | 14.4 | 5.3 | 0.45 | 0.22 | ||
BFGL-NGS-38561 | 9 | 45373250 | 13.7 | 4.6 | 0.42 | 0.21 | ||
BTB-00402956 | 9 | 84338662 | 11.5 | 4.7 | 0.38 | 0.20 | ||
BFGL-NGS-48434 | 9 | 106226558 | 11.1 | 4.6 | 0.38 | 0.22 | ||
BTB-01568010 | 11 | 51716179 | 13.4 | 6.2 | −0.44 | −0.32 | ||
Hapmap26998-BTA-152949 | 13 | 13253202 | 11.2 | 5.0 | −0.63 | −1.79 | ||
BFGL-NGS-64510 | 13 | 41797328 | 14.1 | 4.4 | 0.44 | 0.21 | ||
BTA-71452-no-rs | 13 | 62459428 | 13.3 | 6.5 | 0.43 | 0.26 | ||
BFGL-NGS-89312 | 13 | 62648774 | 11.0 | 6.1 | 0.38 | 0.25 | ||
BFGL-NGS-20976 | 13 | 62755245 | 14.7 | 4.0 | 0.47 | 0.21 | ||
BTB-00832114 | 22 | 4971802 | 11.3 | 5.0 | 0.50 | −0.27 | ||
UA-IFASA-6407 | 22 | 22434343 | 11.0 | 5.1 | −0.49 | −2.20 | ||
Hapmap33956- BES4_Contig493_3026 | 22 | 43302073 | 11.2 | 5.0 | 0.38 | −0.22 | ||
THIslope | ||||||||
BFGL-NGS-139 | 8 | 18499827 | 11.2 | 8.9 | 0.16 | 0.23 | ||
BFGL-NGS-89500 | 10 | 20564990 | 11.9 | 5.4 | −0.15 | −0.1 | ||
BFGL-BAC-38208 | 25 | 32862254 | 11.4 | 5.6 | −0.12 | −0.07 | ||
BFGL-NGS-30169 | 29 | 48329079 | 12.1 | 4.7 | 5 | −0.13 | −0.09 | 0.06 |
The effects are the result of inheriting one extra copy of the second allele of the SNP (alleles in alphabetical order and called in top-bottom format). The F-value thresholds were 10.84 (P<0.001) for discovery and 3.85 (P<0.05) for validation. Blank cells indicate non-significance.
Note that the ARS prefix in front of BFGL in the marker names has been removed for clarity.