Table 3.
The variant effect predictor summary of SNPs in selected candidate segments of the QTL regions (according to Table 2).
| Location within gene | Region |
|||||||
|---|---|---|---|---|---|---|---|---|
| C1G1 | C2G2 | C3G4 | C4G6 | C5G8 | C7G9 | C20G12 | Total | |
| 3Prime UTR | 200 | 93 | 200 | 153 | 73 | 348 | 75 | 1142 |
| 3Prime UTR, Splice site | 1 | 1 | 2 | |||||
| 5Prime UTR | 22 | 9 | 44 | 20 | 3 | 50 | 28 | 176 |
| 5Prime UTR, Splice site | 1 | 4 | 5 | |||||
| Coding unknown | 1 | 1 | 2 | |||||
| Downstream | 6118 | 2636 | 5318 | 2373 | 1395 | 7930 | 1384 | 27154 |
| Essential splice site | 2 | 3 | 6 | 1 | 1 | 4 | 3 | 20 |
| Non-synonymous coding | 215 | 82 | 255 | 92 | 60 | 470 | 80 | 1254 |
| Non-synonymous coding, Splice site | 6 | 4 | 8 | 5 | 3 | 17 | 1 | 44 |
| splice site, Intronic | 78 | 37 | 133 | 33 | 24 | 191 | 31 | 527 |
| Stop gained | 5 | 7 | 3 | 2 | 10 | 27 | ||
| Stop gained, Non-synonymous coding | 1 | 1 | ||||||
| Synonymous coding | 350 | 208 | 543 | 165 | 99 | 1113 | 159 | 2637 |
| Synonymous coding, splice site | 9 | 9 | 12 | 5 | 6 | 20 | 12 | 73 |
| Upstream | 5506 | 2626 | 5755 | 2570 | 1200 | 8312 | 1479 | 27488 |
| Within mature miRNA | 1 | 1 | ||||||
| Within non-coding gene | 4 | 2 | 1 | 3 | 12 | 4 | 26 | |
| Within non-coding gene, splice site | 1 | 1 | ||||||
| Total | 12516 | 5708 | 12284 | 5422 | 2870 | 18484 | 3256 | 60540 |