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Table 3 Frequencies and predicted functional impacts of chicken nonsynonymous SNPs on the IL-4Rα protein product compared to the red JF genome sequence

From: Evidence of balanced diversity at the chicken interleukin 4 receptor alpha chain locus

Base Positions

Amino Acid

Prediction

Score

Certainty

N2

Outcome

 

Position

Red JF

M.A.

     

4435–37

5

F

L

neutral

0.316

3

111

not significant

4450–52

10

T

A

neutral

0.104

7

1

neutral

9622–24

138

N

H

neutral

0.320

3

1

not significant

12661–63

520

L

P

neutral

0.413

1

102

not significant

12871–73

590

S

G

neutral

0.329

3

173

not significant

12883–85

594

L

R

neutral

0.270

4

174

not significant

13096–98

665

M

R

neutral

0.495

0

172

not significant

13096–98

665

M

Q

neutral

0.119

7

7

neutral

13096–98

6651

R

Q

neutral

0.510

5

7

not significant

13096–98

6651

R

stop

-

-

-

1

deleterious

13111–13

670

S

Y

neutral

0.036

9

163

neutral

13111–13

670

S

F

neutral

0.061

8

17

neutral

13111–13

6701

Y

F

neutral

0.023

9

17

neutral

13177–79

692

T

S

neutral

0.037

9

157

neutral

13177–79

692

T

N

neutral

0.060

8

23

neutral

13177–79

6921

S

N

neutral

0.028

9

23

neutral

  1. M.A. is the minor allele(s), in some cases this is the most frequent in the chicken samples. Amino acid sites 5, 10, 524 and 669 are polymorphic in the outgroup samples as well. 1 Polymorphic within chicken samples only. 2 N is the number of observed samples with the M.A. Substitutions where the PMut certainty values ≤ 6 did not have statistical support for the predicted change.