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Table 7 Boundaries of the validated regions with significant dominance effect on calving interval and the most significant SNPs with their associated genes within these regions in discovery and validation populations

From: Validation of markers with non-additive effects on milk yield and fertility in Holstein and Jersey cows

   Most strongly associated SNP in discovery Most strongly associated SNP in validation  
BTCa Interval (Mbp)b SNP Position (bp) -log10 (P) Effect ± SE MAFc \( \frac{\sigma_d^2}{\sigma_p^2} \) (%)d SNP Position (bp) -log10 (P) Effect ± SE MAF \( \frac{\sigma_d^2}{\sigma_p^2} \) (%) Genese
1 19.667 - 19.777 rs110080440 19706636 4.651 −3.802 ± 0.896 0.299 0.091 rs109600947 19776964 2.178 −4.129 ± 1.52 0.249 0.080 NA
2 80.202 - 80.654 rs41591067 80201648 4.412 3.07 ± 0.746 0.500 0.084 rs133868000 80276795 2.403 −3.268 ± 1.133 0.473 0.089 MYO1B f
3 15.808 - 15.963 rs134910746 15947344 4.119 3.024 ± 0.764 0.420 0.078 rs29020504 15808470 2.505 −5.434 ± 1.837 0.197 0.099 KCNN3
7 62.509 - 62.852 rs29013244 62508803 4.252 3.012 ± 0.747 0.480 0.081 rs43520270 62851917 2.123 3.664 ± 1.37 0.304 0.081 ABLIM3
23 46.082 - 46.581 rs137262994 46579868 4.494 −3.234 ± 0.777 0.407 0.087 rs109881533 46081778 2.401 4.222 ± 1.464 0.264 0.090 OFCC1
23 50.929 - 51.326 rs110165999 51326222 5.087 −5.153 ± 1.154 0.205 0.101 rs134147379 51081072 2.212 −3.689 ± 1.345 0.309 0.083 GMDS
25 39.070 - 39.921 rs135893130 39548382 4.364 −3.225 ± 0.788 0.390 0.084 rs108968775 39070284 2.808 3.583 ± 1.131 0.489 0.108 LOC618542
28 43.832 - 44.145 rs133899460 44144815 4.032 −2.918 ± 0.7461 0.480 0.076 rs109392728 43831664 2.404 −6.638 ± 2.302 0.143 0.089 CHAT
  1. a BTC Bos Taurus chromosome
  2. bIntervals containing individually validated SNPs are in bold
  3. c MAF minor allele frequency
  4. d σ 2 d = dominance variance; σ 2 p = phenotypic variance
  5. eGenes with both top SNPs in discovery and validation inside them are in bold
  6. fGenes with individually validated SNPs within them