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Table 1 Primers for near full-length HCV amplification

From: A method for near full-length amplification and sequencing for six hepatitis C virus genotypes

Region

Round

Sense

GT

Primer name

Sequence (5′-3′)a

Genome binding positionb

Published

3′UTR

RT

-

All

vir7

AAAAAAAAAAAAAAAAAAAA

9418-9486

[13]

5′UTR-NS5B

Outer

+

All

KY80

GCAGAAAGCGTCTAGCCATGGCGT

68-91

[28]

  

-

1

Vir45a

CCAGCGGGGYCGGGCVYGAGACA

9262-9314

Unpublished

  

-

2

hep323

GGAGTGTASCTARTGTGTGCCGCT

9378-9401

[11]

  

-

3

hep234b

TGGAGTGTTATCYTACCAGC

9378-9397

[11]

  

-

4

GEN4.R1

TCGGGCAYGRGACAYGCTGTGATAAATG

9278-9305

[11]

  

-

5

GEN5.R1

TCGGGCACGGGACATGCTGTGATAAATG

9278-9305

Unpublished

  

-

6

Vir65

CGRGCCYGGGACACGCTGTG

9285-9304

Unpublished

5′UTR-NS5B

Inner

+

All

hep21b

GAGTGTYGTRCAGCCTCCAGG

98-118

[20]

  

-

1,2,3,6

hep296

CGGGCAYGAGACASGCTGTGATAWATGTC

9276-9304

[11]

  

-

4

GEN4.R2

TCTCCCCCGCCRGCGCCYACCGTRAACC

9250-9277

Unpublished

  

-

5

GEN5.R2

TCCCCCCCGCCRGCGCCAACGGTRAACC

9250-9277

Unpublished

  1. aFor degenerate primers, B = C or G or T, H = A or C or T, M = A or C, N = A or C or G or T, R = A or G, S = C or G, W = A or T, V = A or C or G, D = A or G or T, Y = C or T
  2. bGenome binding position with reference to HCV GT1a strain, H77, GenBank accession AF009606