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Table 3 Novel and reported SNPs for association analysis

From: Associations of SNPs located at candidate genes to bovine growth traits, prioritized with an interaction networks construction approach

Gene Gen location Allele Amino acid (AA) Change of AA class AA position SNP IDa
RXRA Exon 1 [C/T] Pro (P) Ser (S) 8 rs209839910
Intron 1 [A/G] ------ ------ ------ g.105,985,004
Intron 1 [G/T] ------ ------ ------ g.105,985,027
Intron 1 [T/G] ------ ------ ------ g.105,985,044
Intron 1 [G/A] ------ ------ ------ g.105,985,130
Intron 1 [C/T] ------ ------ ------ g.105,986,006
Exon 2 [A/G] Ser (S) No change 136 g.105,986,149
Exon 3 [G/T] Val (V) No change 148 g.105,986,715
Exon 3 [A/C] Asn (N) Thr (T) 162 rs137184653
Exon 4 [C/T] Pro (P) Leu (L) 198 g.105,989,022
Exon 4 [C/T] Thr (T) No change 217 g.105,989,080
Intron 4 [G/A] ------ ------ ------ g.105,989,114
Intron 4 [A/G] ------ ------ ------ g.105,989,179
Intron 4 [T/C] ------ ------ ------ g.105,989,219
Intron 4 [T/C] ------ ------ ------ g.105,989,236
Intron 4 [G/A] ------ ------ ------ g.105,989,283
Exon 5 [G/A] Arg (R) Lys (L) 245 g.105,989,790
Intron 5 [G/A] ------ ------ ------ g.105,989,983
Intron 5 [A/C] ------ ------ ------ g.105,990,023
Exon 7 [G/A] Pro (P) No change 357 g. 105,990,568
Exon 8 [T/C] Arg (R) No change 370 rs136289117
Intron 9 [G/A] ------ ------ ------ g.106,004,142
Intron 9 [A/C] ------ ------ ------ g.106,004,147
Intron 9 [G/A] ------ ------ ------ g.106,004,180
Intron 9 [A/G] ------ ------ ------ g.106,004,184
Intron 10 [T/C] ------ ------ ------ g.106,004,449
Intron 10 [C/A] ------ ------ ------ g.106,004,518
Intron 12 [G/A] ------ ------ ------ g.106,009,252
Intron 12 [G/A] ------ ------ ------ g.106,009,293
Intron 12 [C/T] ------ ------ ------ g.106,011,088
Intron 12 [C/G] ------ ------ ------ g.106,011,096
Intron 12 [T/G] ------ ------ ------ g.106,011,126
Exon 13 [C/T] Ile (I) No change 667 g.106,011,238
Exon 13 [C/T] Pro (P) No change 672 g.106,011,253
Intron 13 [C/T] ------ ------ ------ g.106,011,448
Intron 13 [C/T] ------ ------ ------ g.106,011,466
Intron 13 [G/A] ------ ------ ------ g.106,011,539
IGF1R Exon 1 [T/C] Ser (S) No change 4 rs379619394
Exon 1 [A/G] Gly (G) Arg (R) 6 rs385718425
Exon 1 [C/A] Leu (L) Ile (I) 25 rs209595810
Exon 1 [T/G] Ile (I) Met (M) 28 rs380419725
Exon 1 [T/G] Ser (S) Ile (I) 29 rs378266791
Exon 2 [T/C] Cys (C) No change 33 rs134868883
Exon 7 [T/C] Asp (D) No change 491 rs41961336
Exon 7 [A/C] Thr (T) Pro (P) 496 rs135514117
Exon 7 [C/T] Ser (S) Pro (P) 497 rs132825686
Exon 8 [C/T] Ala (A) No change 583 rs385548776
Exon 10 [C/T] Asp (D) No change 675 rs210778604
Exon 11 [C/T] Thr (T) No change 773 rs209736678
Exon 12 [G/A] Pro (P) No change 837 rs41640706
Exon 13 [C/T] Ser (S) No change 881 rs133373507
Exon 16 [C/T] Tyr (Y) No change 987 rs208140993
Exon 19 [G/A] Lys (K) No change 1168 rs380900001
Exon 21 [G/A] Ser (S) No change 1308 rs384753755
TCF15 Exon 1 [C/G] Asp (D) Glu (E) 32 rs134079367
Exon 1 [T/G] Ser (S) Ala (A) 37 rs137532487
Exon 1 [A/C] Gln (Q) Pro (P) 73 rs134702498
Intron 1 [G/A] ------ ------ ------ g.60,997,442
INS Exon 1 [G/A] Ala (A) Thr (T) 24 rs383254521
Intron 1 G/A ------ ------ ------ g.50,036,892
Intron 1 C/T ------ ------ ------ g.50,036,987
Intron 1 A/G ------ ------ ------ g.50,037,033
Exon 2 [T/G] Val (V) Gly (G) 63 rs135743222
Exon 2 [C/T] Pro (P) Leu (L) 72 rs109490717
Exon 2 [C/T] Pro (P) Leu (L) 80 rs109229312
EGFR Exon 1 [T/C] Lys (K) Arg (R) 29 rs136877925
Exon 4 [T/C] Asn (N) Asp (D) 182 rs135955902
Exon 6 [T/G] His (H) Pro (P) 233 rs137416447
Exon 7 [A/G] Asn (N) No change 280 rs209095847
Exon 8 [C/T] Val (V) Ile (I) 318 rs211658253
Exon 18 [T/C] Ser (S) No change 720 rs210170316
Exon 21 [T/C] Ala (A) No change 839 rs110045273
Exon 25 [G/A] Arg (R) No change 999 rs379217506
Exon 28 [G/A] Val (V) No change 1107 rs385131275
USF1 Intron 2 A/G ------ ------ ------ g.8,458,558
Intron 3 G/A ------ ------ ------ g.8,458,837
Intron 6 A/G ------ ------ ------ g.8,459,971
Exon 8 C/T Ser (S) No change 236 g.8,460,354
Intron 9 C/T ------ ------ ------ g.8,460,878
  1. aBased on GenBank Bos taurus genomic sequence: 507554 (RXRA), IGF1R (281848), TCF15 (518491), 280829 (INS), 407239 (USF1), and 407217 (EGFR)