Table 5.
White Striping QTL. Results of single-marker genome-wide association analysis using all progeny.
| QTL | Top SNP in QTL | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Chromosome | Start (bp) | End (bp) | Number of significant SNPs | Position (bp) | Alleles (Effect/ Alternative) | Effect allele frequency | Effect size estimate | p-value | FDR | Candidate genes |
| 5 | – | – | 1 | 12196653 | T/C | 0.232 | − 0.239 | 1.68e−06 | 0.036 | USH1C |
| 5 | 14280580 | 14320311 | 4 | 14280613 | T/C | 0.335 | 0.228 | 9.07e−08 | 0.003 |
LSP1 TNNI2 SYT8 ENSGALG00000006608 CTSD |
| 5 | 14321077 | 14321102 | 2 | 14321077 | G/A | 0.433 | 0.230 | 4.93e−09 | 0.001 |
ENSGALG00000006608 CTSD |
| 5 | – | – | 1 | 14477401 | T/C | 0.238 | − 0.241 | 2.86e−08 | 0.002 |
ENSGALG00000006608 MOB2 |
| 5 | – | – | 1 | 14529930 | T/C | 0.286 | 0.229 | 1.95e−06 | 0.038 |
ENSGALG00000006608 BRSK1 |
| 5 | – | – | 1 | 58074636 | A/G | 0.359 | 0.166 | 1.35e−06 | 0.033 | NIN |
Candidate genes include protein-coding genes located within 5000 bp upstream or downstream of the QTL start or end site, respectively.