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Table 1 Primer details for the amplification of core and NS2

From: Serendipitous identification of natural Intergenotypic recombinants of hepatitis C in Ireland

Region

Polarity

Primer sequence

 

Core a

  

Position b

Core A1

Sense

5'-GAGTGCCCCGGGAGGTCTCGTAGA-3'

309–332

Core A2

Antisense

5'-R CCR CAY GTR AN GGTR TCGATGAC-3'

705–728

Core B1

Antisense

5'-GCR AAR CCR CAY GTR AN GGTR TCG-3'

710–733

Core B2

Sense

5'-GGGAGGTCTCGTAGACCGTGCA-3'

318–339

NS2

  

Position c

NS2 KOS

Sense

5'-GCAAGCTCTGTTGAGGATAT-3'

3025–3044

NS2 KOAS

Antisense

5'-TGTGAGGCTAGTGACGATGC-3'

3405–3424

NS2 KIS

Sense

5'-GGTGGCAAGTACGTCCAGAT-3'

3068–3087

NS2 KIAS

Antisense

5'-TGACGATGCAGCCAAGTAAG-3'

3394–3413

  1. a Y = C or T; R = A or G; N = A, T, G or C.
  2. b Reference strain NC_004102 (1a)
  3. c Reference strain AY587845 (2k/1b)