Table 2 Association statistics for candidate mutations at recessive loci
From: Non-additive QTL mapping of lactation traits in 124,000 cattle reveals novel recessive loci
Trait | QTL | Chr8_44 Mb | Chr25_24-27Â Mb | Chr25_35 Mb | Chr27_15 Mb | Chr28_6-7Â Mb | ||
|---|---|---|---|---|---|---|---|---|
| Â | Position | g.8.44119667T>A | g.25.24904939C>T | g.25.25161613G>A | g.25.26689392G>A | g.35975573C>T | g.27.15491451C>T | g.28.7922207G>A |
rsID | rs483207034 | rs453138457 | rs471945767 | rs1116814780 | NA | rs523126258 | NA | |
Candidate gene | DOCK8 | IL4R | KIAA0556 | ITGAL | LRCH4 | SLC25A4 | RBM34 | |
VEP | AA substitution | AA substitution | AA substitution | Premature stop | Premature stop | AA substitution | Premature stop | |
Protein impact | p.His649Leu | p.Pro151Leu | p.Arg158His | p.Trp731* | p.Arg123* | p.Thr197Met | p.Arg55* | |
SIFT score | 0 | 0.02 | 0.14 | NA | NA | 0.01 | NA | |
MAF (HF/J/ALL) | 0.013/0.059/0.03 | 0.001/0.043/0.017 | 0.001/0.042/0.016 | 0.002/0.049/0.019 | 0.034/0.001/0.031 | 0.046/0.001/0.027 | 0.044/0.004/0.043 | |
Milk (L/lactation) | a ± sd | − 129.181 ± 23.604 | − 218.249 ± 39.988 | − 279.656 ± 49.108 | − 169.491 ± 37.441 | − 153.832 ± 24.201 | − 123.607 ± 25.598 | − 106.454 ± 17.786 |
p | 4.43E−08 | 4.82E−08 | 1.24E−08 | 5.99E−06 | 2.05E−10 | 1.38E−06 | 2.16E−09 | |
d ± sd | 109.644 ± 23.905 | 215.668 ± 40.648 | 269.952 ± 49.887 | 161.062 ± 37.587 | 97.084 ± 245.537 | 120.056 ± 25.895 | 106.246 ± 17.929 | |
p | 4.51E−06 | 1.12E−07 | 6.26E−08 | 1.83E−08 | 7.60E−05 | 3.55E+06 | 3.10E−09 | |
k | 0.849 | 0.988 | 0.965 | 0.95 | 0.63 | 0.971 | 0.998 | |
Fat (kg/lactation) | a ± sd | − 5.643 ± 1.177 | − 11.827 ± 2.109 | − 15.569 ± 2.359 | − 9.708 ± 1.870 | − 6.849 ± 1.137 | − 7.075 ± 1.201 | − 5.170 ± 0.866 |
p | 1.66E−06 | 2.05E−08 | 4.10E−11 | 2.09E−07 | 1.71E−09 | 3.84E−09 | 2.40E−09 | |
d ± sd | 5.110 ± 1.181 | 11.339 ± 2.087 | 14.744 ± 2.372 | 9.022 ± 1.910 | 4.412 ± 1.133 | 5.729 ± 1.249 | 5.546 ± 0.859 | |
p | 1.51E−05 | 5.56E−08 | 5.08E−10 | 2.33E−06 | 9.82E−05 | 4.48E−06 | 1.06E−10 | |
k | 0.906 | 0.959 | 0.947 | 0.929 | 0.64 | 0.809 | 1.073 | |
Protein (kg/lactation) | a ± sd | − 4.981 ± 0.870 | − 9.226 ± 1.616 | − 11.885 ± 1.834 | − 7.847 ± 1.374 | − 5.498 ± 0.838 | − 5.008 ± 0.944 | − 3.539 ± 0.587 |
p | 1.05E−08 | 1.12E−08 | 9.23E−11 | 1.11E−08 | 5.49E−11 | 1.14E−07 | 1.60E−09 | |
d ± sd | 4.308 ± 0.897 | 9.023 ± 1.631 | 11.435 ± 1.829 | 7.497 ± 1.389 | 4.067 ± 0.844 | 4.595 ± 0.949 | 3.695 ± 0.592 | |
p | 1.56E−06 | 3.14E−08 | 4.02E−10 | 6.77E−08 | 1.43E−06 | 1.30E−06 | 4.29E−10 | |
k | 0.865 | 0.978 | 0.962 | 0.955 | 0.74 | 0.917 | 1.044 | |