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Table 1 Detected SNPs in bubaline TLRs2 , 4 and 9 genes

From: Identification of single nucleotide polymorphisms in Toll-like receptor candidate genes associated with tuberculosis infection in water buffalo (Bubalus bubalis)

Gene

SNP a

AA change b

Protein domain c

dbSNP ID

TLR2

42 C > T

Silent 14

-d

rs1388116474:C > T

 

53 C > T

M18T

-

rs1388116475:C > T

 

108 C > T

Silent 36

LRR 8

rs1388116476:C > T

 

153 G > A

Silent 51

LRR_RI

rs1388116477:G > A

 

156 C > T

Silent 52

LRR_RI

rs1388116478:C > T

 

374 T > C

A125V

LRR 8

rs1388116479:T > C

 

381 A > G

Silent 127

LRR 8

rs1388116480:A > G

 

482/483 GC > CT

S161T

LRR 8

rs1388116481:GC > CT

 

519 G > C

Silent 173

LRR_RI

rs1388116482:G > C

 

1034 A > G

S345N

-

rs1388116483:A > G

 

1375 T > C

Silent 459

LRR4

rs1388116484:T > C

 

1407 C > T

Silent 469

LRR4

rs1388116485:C > T

 

1650 G > A

Silent 550

LRR_CT

rs1388116486:G > A

 

1678 A > G

A560T

LRR_CT

rs1388116487:A > G

 

1707 C > Te

Silent 569

LRR_CT

rs1388116488:C > T

 

1731 C > T

Silent 577

LRR_CT

rs1388116489:C > T

 

1740 C > T

Silent 580

LRR_CT

rs1388116490:C > T

 

2064 T > C

Silent 688

TIR

rs1388116491:T > C

TLR4

572 A > Cf

Y191S

LRR8

rs1388116492:A > CG

 

572 A > Gf

silent

LRR8

rs1388116492:A > CG

 

574 C > T

Q192W

LRR8

rs1388116493:C > T

 

575 A > G

Q192W

LRR8

rs1388116494:A > G

 

576 T > G

Silent192

LRR8

rs1388116495:T > G

 

577 G > A

E193K

LRR8

rs1388116496:G > A

 

579 A > G

Silent193

LRR8

rs1388116497:A > G

 

647 G > A

Silent216

LRR_RI

rs1388116498:G > A

 

662 G > A

Silent221

-

rs1388116499:G > A

 

672 A > C

Silent224

-

rs1388116500:A > C

TLR9

2340 C > T

Silent780

-

rs1388116501:C > T

 

2475 A > G

Silent825

-

rs1388116502:A > G

  1. aSNPs positions were calculated taking the ATG start codon as position 1 based on the sequences GenBank: HM756161 (TLR2 gene), GenBank: JN786600 (TLR4 gene), GenBank: HQ242778 (TLR9 gene).
  2. bAmino acid positions are given according to the ATG start codon.
  3. cProtein domain has been predicted from the cds sequence by using the Conserved Domain Database available at http://www.ncbi.nlm.nih.gov/Structure/cdd/wrpsb.cgi [23],[24].
  4. dProtein position with unknown function.
  5. eThis SNP is conserved also in the bovine species [9].
  6. fThis polymorphic site exhibits a SNP with three different alleles (572 A > CG).