Table 2. Details of loci associated with seed coat color identified via association mapping.
| Locus | Chr. | Position of most significant SNPs | P-value | R2 | No. of coding SNPs | Significant region | Classic loci | ||
|---|---|---|---|---|---|---|---|---|---|
| Start | End | Range(kb) | |||||||
| qSC1 | 1 | 52,438,308 | 3.96E-04 | 0.2685304 | 5 | 51,388,129 | 52,467,583 | 1079 | - |
| qSC2 | 6 | 19,047,336 | 1.45E-04 | 0.3022027 | 7 | 18,878,314 | 19,047,336 | 169 | T |
| qSC3 | 7 | 43,082,019 | 1.32E-05 | 0.4644675 | 6 | 41,940,392 | 43,082,019 | 1142 | - |
| qSC4 | 8 | 5,501,159 | 1.42E-04 | 0.318538 | 6 | 3,417,779 | 5,512,389 | 2095 | O |
| qSC5 | 8 | 7,589,623 | 9.56E-07 | 0.6492089 | 51 | 6,783,439 | 8,648,879 | 1865 | I |
| qSC6 | 8 | 39,553,339 | 7.40E-05 | 0.3314216 | 8 | 39,473,028 | 40,585,746 | 1113 | - |
| qSC7 | 9 | 43,418,250 | 3.55E-04 | 0.2882047 | 5 | 38,277,760 | 43,419,283 | 5142 | R |
| qSC8 | 10 | 43,409,021 | 5.61E-05 | 0.3567043 | 15 | 42,771,760 | 43,820,987 | 1049 | - |
| qSC9 | 11 | 681,423 | 6.77E-05 | 0.3912334 | 9 | 681,423 | 1,055,084 | 374 | - |
| qSC10 | 11 | 38,426,187 | 9.55E-05 | 0.3558796 | 12 | 38,370,581 | 38,636,896 | 266 | - |
| qSC11 | 12 | 5,404,396 | 2.57E-04 | 0.2872759 | 3 | 5,404,396 | 5,649,464 | 245 | - |
| qSC12 | 13 | 7,117,537 | 2.95E-04 | 0.271697 | 9 | 6,661,165 | 7,743,106 | 1082 | W1 |
| qSC13 | 13 | 39,050,259 | 4.40E-05 | 0.4384943 | 5 | 39,045,030 | 39,157,835 | 113 | - |
| qSC14 | 18 | 57,962,686 | 3.67E-04 | 0.2844445 | 5 | 57,910,138 | 57,962,686 | 53 | - |