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Table 5 Sequence of TRAV/TRDV subgroup-specific primers

From: Genomic analysis offers insights into the evolution of the bovine TRA/TRD locus

TRAV/TRDV subgroup

Subgroup-specific 5′ primer sequence

AV1

CAGGAAAAGGCGTTAAGCAG

AV2

GGTCTCTTTGGAGGGAGCTG

AV3

CAGCCAGAAGCTGAGGTC

AV4

AGTGACCGTGCTCCTGAC

AV8.1

TGATGCTTGAGATGCTCCTG

AV8.2

CGGTCACATCAACGTCTCTG

AV8.3

ATTCCAGAGGCCAGTCAGTG

AV9

CTTCTCCAGGCTTAGTGACTG

AV10

TGAGTGGCAAAAACCAAGTG

AV12

CACAGTGGAGCAGAGTCCTG

AV5 and 13

CTTGTGGCT(A/G)CAGCTGGAC

AV14

AGGTGGTCGTGGCTTCACT

AV16

CAAGAGCCCAGACAGTGACTC

AV17

GAGAAGCTTCTGGCCCTG

AV18

GTTGTTACCCT(C/T)CCCGAGAAG

AV19

G(G/C)ATGTA(A/G)CCTTGAACTGTGC

AV20

CCAGGAGGGGGACAGTCT

AV21

GCCTGCTCATCCTTTGGTTA

AV22

CTT(C/T)TGTTTGCCCAGGTTTG

AV23

AAGTGACCAA(G/C)AGCAGGTGA

AV24

CCCTTGCTGTGGGTTCAG

AV25

G(G/C)ACCAGTGTTGATCTTA(C/T)GGA

AV26

TCCATGGATT(A/G)T(G/C)CTGAAGG

AV27

TGGTCTTTTGGATTCAACTGG

AV28

ACAAAGAAGAGTCTTGCTGAGTC

AV29

GCTTCAGTCTGACTGGGTG

AV33

GGCTGACAAAGTTACTGAAGC

AV35

GACATGTGTGAGTGCCCAAC

AV36

CCCCATCTCTGATTGTCCAT

AV38

CACAGTGACCCTGGACTGTA

AV41

AGGAAGGAGACCTCGTCACA

AVX

GGCTCTC(A/C)TGACCCTGAACT

AVY

GGTGGAGCAGA(A/G)TCCTTCAG

DV1.1

(G/C/T)C(A/T)GCTCTGGGTG(C/T)TCCT

DV1.2

GTGGCCCAGA(A/G)(A/C/T)GTTACTCA

DV2

TCATCCACCTCACCCTCTTC

DVY

CGTAACTGGAGGGAACTGGA

DV3

ATGTTTCTCCCTGTGGGCTTC

DVb3

TCTGCCTTGGTTCCAACAAT

  1. All of these primers were designed as part of this study based on sequences of functional members of the TRAV/TRDV subgroups identified in the UMD3.1 genome assembly, with the exception of DV3 which was published previously [17].