Table 2.
Associations of HMGA2 and SOX5 haplotypes with ear size in the F2 resource population
| Gene | Haplotype | Frequency | Effect ± s.e.* (cm2) | Corrected P-value |
|---|---|---|---|---|
| HMGA2 | A/C/G | 0.002 | -41.43 ± 28.64 | 1 |
| A/C/A | 0.012 | -5.09 ± 9.66 | 1 | |
| A/T/G | 0.484 | -20.96 ± 1.70 | 4.34E-31 | |
| A/T/A | 0.004 | -36.21 ± 15.33 | 0.15 | |
| G/C/G | 0.001 | 8.73 ± 28.68 | 1 | |
| G/C/A | 0.255 | 22.71 ± 2.22 | 3.87E-22 | |
| G/T/G | 0.213 | 16.66 ± 2.71 | 9.71E-09 | |
| G/T/A | 0.029 | 3.72 ± 6.66 | 1 | |
| phenotypic variance explained by all haplotypes | 19.47% | 1.31E-31 | ||
| SOX5 | T/T/T | 0.170 | -7.99 ± 2.69 | 0.03 |
| T/C/T | 0.234 | 11.09 ± 2.33 | 1.83E-05 | |
| T/T/G | 0.359 | -17.75 ± 1.96 | 6.45E-18 | |
| T/C/G | 0.101 | 11.85 ± 2.97 | 5.66E-04 | |
| C/T/T | 0.002 | 45.88 ± 19.90 | 0.17 | |
| C/C/T | 0.114 | 15.19 ± 2.96 | 2.71E-06 | |
| C/T/G | 0.008 | 3.87 ± 10.37 | 1 | |
| C/C/G | 0.012 | 17.88 ± 8.99 | 0.38 | |
| phenotypic variance explained by all haplotypes | 12.82% | 2.48E-22 | ||
Effect ± s.e. represent the effect of haplotypes and its standard error, the negative values indicate decrease in ear size