Artificial Selection Drives SNPs of Olfactory Receptor Genes into Different Working Traits in Labrador Retrievers
Table 7
Prediction of the deleterious effect of the nonsynonymous polymorphism in OR genes by SIFT, PROVEAN, and Align GVGD.
SNP
Amino acid variant
SIFT
PROVEAN
Align GVGD
GV
GD
Prediction
OR0006:c.524 G > T∗
p.R175 L
0
−6.292
0.00
101.88
Class C65
OR0007:c.331 T > C
p.F111 L
0.41
−2.834
0.00
21.82
Class C15
OR0007:c.430 G > A
p.G144S
1
2.354
0.00
55.27
Class C55
OR0007:c.508 G > A∗
p.V170 M
0.07
−1.330
0.00
21.52
Class C15
OR0007:c.691 G > C
p.V231 L
1
1.909
0.00
31.78
Class C25
OR0007:c.730 T >C
p.W244 R
1
3.875
0.00
101.29
Class C65
OR0007:c.793 G > C
p.V265 L
1
2.075
0.00
31.78
Class C25
OR0007:c.829 C >T
p.P277S
1
0.799
0.00
73.35
Class C65
OR0007:c.830 C > T
p.P277 L
0.13
4.918
0.00
97.78
Class C65
OR16C11:c.368 C >A
p.A123D
0
−5.989
0.00
125.75
Class C65
OR16C11:c.391 A >G
p.T131 A
0.19
−2.605
0.00
58.02
Class C55
DOPRX09:c.479 G > A
p.S160 N
0.11
−0.423
0.00
46.24
Class C45
DOPRX09:c.481 T >G
p.S161 A
0.06
−0.009
0.00
99.13
Class C65
DOPRX09:c.486 T >G
p.F162 L
1
−1.589
0.00
21.82
Class C15
DOPRX09:c.889 G > A∗
p.V297I
0.02
−0.826
0.00
29.61
Class C25
OR7215:c.251 C >T
p.P84 L
0.01
−7.578
0.00
97.78
Class C65
OR7215:c.286 G > A
p.G96S
1
0.866
0.00
55.27
Class C55
OR7215:c.299 A >G
p.Y100 C
1
10.826
0.00
193.72
Class C65
OR7215:c.339 G > A
p.M113I
0.19
−1.904
0.00
10.12
Class C0
OR7215:c.413 G > A∗
p.R138H
0.01
−4.234
0.00
28.82
Class C25
OR7215:c.578A>T∗
p.N193I
N/A
−0.888
0.00
148.91
Class C65
OR04B06:215T>G
p.L72R
0
−5.605
0.00
101.88
Class C65
OR04B06:394A>G
p.A132T
0.08
−2.476
0.00
58.02
Class C55
OR04B06:411A>T
p.F137L
0.77
1.195
0.00
21.82
Class C15
Asterisks marked out the breed-specific SNPs. No asterisks meant that the SNPs could be found in other dog breeds besides Labs. SIFT scores range from 0 to 1. The amino acid substitution is predicted to be damaging if the score is ≤0.05 and tolerated if the score is > 0.05. N/A: not available, GD ≥ C65 = most likely affected, and GD ≥ C0 = less likely affected. The amino acid substitution is predicted to be deleterious (<−2.5) and neutral (>−2.5) by PROVEAN.
