Table 1.
Details of primers used in this study.
| Primer name | Source | Sequence (5′-3′) | Positiona |
|---|---|---|---|
| Murphy 5′UTR F | Murphy et al. (2007b) | GAAAGCGTCTAGCCATGGCGTTAGT | 71–95 |
| Murphy 5′UTR R | Murphy et al. (2007b) | CTCGCAAGCACCCTATCAGG | 311–292 |
| 5′ UTR Ex 400F | This study | CCTTGTGGTACTGCCTGATAG | 279–299 |
| CHV core 980 Rex | This study | AGTGCCARRAGGAACATAGA | 883–864 |
| 5′UTR In 405 F | This study | CTGATAGGGTGCTTGCGAGTG | 293–313 |
| CHV core 973 Rin | This study | AGTGCCARRAGGAAGATAGARAA | 883–861 |
| NS5B Ex 8274 F | This study | TGGGGATCCCGTATGATACCCGCTGCTTTGA | 8245–8275 |
| NS5B Ex 8616 R | This study | CGGAATTCCTGGTCATAGCCTCCGTGAA | 8643–8616 |
| NS5B In 8378 for | This study | GACACCCGCTGCTTTGACTC | 8259–8278 |
| NS5B In 8611 rev | This study | GAGTCTTCACGGAGGCTATGACNAGGTA | 8638–8611 |
a
Numbering relative to isolate H77 (Genbank accession number AF009606).