Table 1 Primers used for Amplification and DNA Sequencing of 5' UTR and NS5B regions in the identification of the HCV recombinant isolate (A, B) and subsequently for Amplification of Overlapping Products Across Entire HCV Recombinant Genome (1-7)
From: Naturally occurring genotype 2b/1a hepatitis C virus in the United States
Amplicon | Nucleotide Number (H77 numbering Accession no. AF009606) | Forward Primer (5'-3') Normal: HCV genotyping primer; Bold: 1a primer;Italics: 2b primer | Reverse Primer (5'-3') Normal: HCV genotyping primer; Bold: 1a primer;Italics: 2b primer |
|---|---|---|---|
A | 73-313 | AAGCGTCTAGCCATGGCGT [7] | CACTCGCAAGCACCCTATCA [6] |
B | 8256-8644 | TATGAYACCCGCTGYTTTGACTC [8] | GCNGARTAYCTVGTCATAGCCTC [8] |
1 | 92-1295 | TAGTATGAGTGTCGTACAGCCTCC | TAGGGGACCAGTTCATCATCATATCCCATGCC |
| Â | Â | Â | ATGACTTTGGCCCACGCTCCCTGCATGG |
2 | 1171-2240 | TGGGAGACGTGTGTGGGGCCGTGATGATCGTGTCGCAGGC | TTGGTATATCCAGTTGAGTTCATCCAGGTGCAACCGAACC |
| Â | Â | Â | TGCGGACAATCGATGCTCCACCCCCCCTACATACATCCG |
3 | 2108-2980 | TTTTAGGAAGCACCCAGATACCACCTATCTTAAGTGTGGAGC | TTGCGCTTCTGCTCTAGTCAGAAAATACTGAAGCCACC |
| Â | Â | Â | TGACCTCAAACACAAGGCGTGGGTGTAGAATGACAGCC |
4 | 2901-4793 | TTAGTCTTGGCCGAGGCCCAGATTCAGCAATGGG | TGGTTGTCTCAATGGTGAAGGTAGGGTCAAGGC |
| Â | Â | Â | TTCTCCCTCTACGTTGACTACGGGAGACAGC |
5 | 4707-5789 | ATAGACTGTAACACGTGTGTCACCC | AGGACCTTCCCCAGTCCAACAC |
6 | 5758-7285 | CCACTGGCCAAACCCTCCTCTTCAACATA | ACCACAGGTGGTTCGTAGTCGGGCTTTTTCCACGCC |
7 | 7218-9296 | GCGCGGCCGGACTACAACCCCCCGCTGATAGAGGCGTGG | TTCATTATGAAAGGATCCGCGGGGTCGGGCACGAGACAGGCTGTG |