Table 3

AR and Tex11 SNP association analysis in the Brahman cattle population
Trait SNP   P Allele Effect SE %Va
PNS18 AR1_In4 0.1159 T −3.793 2.408 0.425
PNS18 Tex11_r38k 0.4506 G 2.387 3.153 0.097
PNS18 Tex11_g297d 0.0155 A 6.821 2.809 1.099
PNS18 Tex11_r696h 0.4933 G 2.168 3.168 0.077
PNS24 AR1_In4 0.7291 T 0.5082 1.467 0.014
PNS24 Tex11_r38k 0.0796 G −3.456 1.968 0.374
PNS24 Tex11_g297d 0.0081 A 4.578 1.723 0.912
PNS24 Tex11_r696h 0.0906 G −3.43 2.023 0.355
SC12 AR1_In4 0.0001 T −0.5531 0.1405 3.249
SC12 Tex11_r38k 4.38 x10-8 G 1.038 0.1881 6.579
SC12 Tex11_g297d 0.4797 A −0.119 0.1679 0.120
SC12 Tex11_r696h 1.30 x10-7 G 1.012 0.1902 6.037
SC18 AR1_In4 5.04 x10-8 T −0.8811 0.1604 4.820
SC18 Tex11_r38k 8.25 x10-14 G 1.625 0.2142 9.427
SC18 Tex11_g297d 0.0862 A −0.3299 0.192 0.540
SC18 Tex11_r696h 5.79 x10-13 G 1.582 0.2165 8.625
SC24 AR1_In4 4.64 x10-10 T −0.9485 0.1506 5.506
SC24 Tex11_r38k 6.24 x10-14 G 1.544 0.2026 8.390
SC24 Tex11_g297d 0.0617 A −0.3413 0.1825 0.570
SC24 Tex11_r696h 4.46 x10-13 G 1.507 0.2052 7.716

Significance (P), allele substitution effect (Effect) for the named allele of each SNP, its standard error (SE) and percentage of additive variance (%Va) explained by 3 SNP genotypes in Tex11 and 1 SNP in AR on Scrotal Circumference (SC) at 12, 18 and 24 months of age and on the percentage of normal sperm (PNS) at 18 and 24 months of age.

Lyons et al.

Lyons et al. BMC Genetics 2014 15:6   doi:10.1186/1471-2156-15-6

Open Data