Table 6 Fold enrichment/depletion of SNPs in each annotation class for each trait in each breed
From: Genomic regions associated with muscularity in beef cattle differ in five contrasting cattle breeds
|  | 3′ UTR variant | 5′ UTR variant | Coding sequence variant | Downstream gene variant | Intergenic variant | Intron variant | Missense variant | Non-coding transcript | Splice acceptor variant | Splice region variant | Stop gained | Synonymous variant | Upstream gene variant |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
DHQ | |||||||||||||
 AA | – | – | – | 3.76 | 0.89 | 1.02 | – | – | – | – | – | – | 0.73 |
 CH | 3.40 | 0.46 | – | 1.08 | 1.09 | 0.84 | 0.62 | – | – | – | 7.12 | 0.97 | 0.39 |
 HE | 1.80 | – | – | 4.43 | 0.36 | 2.32 | – | – | – | – | – | 0.91 | 0.49 |
 LM | 1.30 | 0.85 | – | 0.50 | 1.02 | 1.09 | 1.15 | – | – | 0.67 | 12.89 | 0.47 | 0.37 |
 SI | – | – | – | 0.40 | 0.86 | 1.54 | – | – | – | – | – | – | 0.39 |
DL | |||||||||||||
 AA | – | – | – | 1.11 | 1.15 | 0.63 | – | – | – | – | – | 3.98 | 0.64 |
 CH | 7.36 | – | – | 2.10 | 0.96 | 1.00 | 0.72 | 1.60 | – | – | 18.71 | 1.07 | 0.50 |
 HE | – | – | – | 1.21 | 0.77 | 1.64 | – | – | – | – | – | 3.63 | 0.39 |
 LM | 2.33 | – | – | 0.20 | 1.25 | 0.58 | – | – | 79.49 | – | – | – | 0.19 |
 SI | – | – | – | 0.94 | 0.93 | 1.13 | 3.90 | – | – | – | – | – | 1.52 |
DIT | |||||||||||||
 AA | – | – | – | 0.14 | 1.03 | 1.12 | – | – | – | – | – | – | 0.66 |
 CH | 3.47 | 0.48 | – | 0.94 | 1.11 | 0.79 | 0.58 | – | – | – | 7.47 | 0.96 | 0.40 |
 HE | – | – | – | 0.40 | 0.48 | 2.43 | 2.49 | – | – | – | – | – | 0.98 |
 LM | 1.16 | 1.77 | 99.15 | 0.86 | 0.99 | 1.09 | 2.28 | – | – | 0.70 | 13.49 | 0.59 | 0.55 |
 SI | – | – | – | 0.86 | 1.04 | 1.05 | – | – | – | – | – | – | 0.62 |
TW | |||||||||||||
 AA | – | – | – | 0.64 | 1.19 | 0.64 | – | – | – | – | – | 2.91 | 0.31 |
 CH | 3.07 | 0.54 | – | 1.22 | 0.99 | 1.01 | 0.24 | 1.43 | – | – | 8.40 | 1.44 | 0.83 |
 HE | – | – | – | 1.10 | 0.87 | 1.50 | – | – | – | – | – | – | – |
 LM | 3.17 | 1.45 | – | 0.45 | 1.21 | 0.61 | 0.22 | – | – | – | 22.05 | 0.32 | 0.28 |
 SI | 2.10 | 9.65 | – | 3.62 | 0.55 | 1.26 | 0.74 | – | – | 23.85 | – | – | 5.36 |
WOW | |||||||||||||
 AA | 3.28 | – | – | 0.18 | 0.84 | 1.44 | – | – | – | – | – | 1.75 | 1.67 |
 CH | 6.90 | – | – | 1.16 | 1.00 | 1.00 | – | – | – | – | 27.28 | 1.09 | 0.60 |
 HE | – | 40.89 | – | 1.00 | 0.93 | 1.17 | – | – | – | – | – | 4.95 | 0.52 |
 LM | 2.15 | 2.46 | – | 0.58 | 1.12 | 0.84 | 0.37 | – | – | – | – | 0.32 | 0.41 |
 SI | 1.99 | – | – | 1.35 | 1.12 | 0.65 | 2.79 | – | – | – | – | – | 1.03 |