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.