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Table 2 Proportion of genetic variance attributable to haplotypes associated with ANAI4

From: Genetic variants in the upstream region of activin receptor IIA are associated with female fertility in Japanese Black cattle

BTA BTA SNP and indel-id positon (bp) _UMD3,1a Q/q haplotype Number of animals genotyped for the haplotype Minor allele frequency Heritability Haplotype effect on total genetic varianceb Haplotype substitution P-valued effectc P-valued
2 g. 48476925C>T and g.48476943_48476946insGGC 48476925 and 48476943. 48476946 T and GCC/C and (-) 1433 0.39 0.02 0.1 0.02 0.017
  1. aThe positions shown are based on the UMD3.1 assembly of the bovine genome.
  2. bThe effects of the haplotype were estimated as the least-square means from GLM analysis. The statistical model for GLM analysis included the fixed variables of the farm, birth year, and haplotype. The genetic variance explained by the haplotype was calculated based on estimates of the haplotype effect and the haplotype frequency [55]. Total genetic variance was estimated using the MTDF-REML programs. The effect size of haplotype was estimated as the proportion of genetic variance explained by the haplotype.
  3. cThe average ANAI4 values for QQ and qq were 0.69 and 0.65, respectively.
  4. dResults were tested by a 1-way ANOVA, followed by the Tukey–Kramer test for multiple comparisons