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Table 6 Boundaries of the validated regions with significant dominance effect on milk yield as well as the most significant SNPs and their associated genes within these regions in discovery and validation populationsa

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
2 95.312 - 95.730 rs136022579 95312328 4.920 155 ± 35.39 0.166 0.149 rs134324850 95725812 3.563 132 ± 36.23 0.171 0.197 ADAM23
3 97.907 - 98.799 rs43361287 98306933 4.351 82.29 ± 20.14 0.443 0.133 rs43363311 97907057 2.516 64.04 ± 21.6 0.427 0.139 AGBL4
5 71.878 - 71.878 rs110106971 71878168 4.947 −99.82 ± 22.71 0.332 0.158 rs110106971 71878168 2.012 55.58 ± 21.49 0.438 0.106 SYN3 f
26 32.249 - 32.341 rs42460360 32248251 4.185 129.5 ± 32.42 0.186 0.124 rs42741343 32336734 2.065 61.42 ± 23.36 0.349 0.110 LOC100847832
26 39.358 - 39.765 rs132810457 39358269 4.017 86.38 ± 22.13 0.343 0.122 rs110552548 39764774 2.239 −88.38 ± 32 0.214 0.125 GRK5
26 44.215 - 44.543 rs109406756 44537471 4.673 114.1 ± 26.83 0.244 0.143 rs134524557 44257893 2.246 70.3 ± 25.4 0.301 0.123 LHPP
27 42.674 - 42.890 rs41665573 42837186 5.248 −90.48 ± 19.92 0.469 0.164 rs41575082 42673983 2.328 62.09 ± 21.95 0.424 0.130 NA
  1. aBTC: Bos Taurus chromosome
  2. bIntervals containing individually validated SNPs are in bold
  3. cMAF: 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