Table 2.
Primers targeting the full E6/E7 region of high-risk HPV types.
| HPV Species | Primer Type | Primer Sequence * | HPV Type and Variant § | Amplicon Length (HPV Type) |
|---|---|---|---|---|
| α 5 | F | AACCGAAAAGGGTTATGACCGA | 51 (all known variants) | 815 |
| R | TCTGCTGTACAACGCGAAGG | |||
| α 6 | F | AGGCAGCTTATTCTGTGTGGA | 56 (all known variants) | 873 |
| R | CAGAGTGGGCACGTTACTGT | |||
| α 7 | F | AGGGAGTRACCRAAAACGGT | 18, 39 (all known variants) | 814 (HPV18) 807 (HPV39) |
| R | GGAATGCTCGAAGGTCGTCT | 18 (all known variants) | ||
| R | CCCGTGAGGCTTCTACTACC | 39 (all known variants) | ||
| F | TGCAACCAAAAACGGTGCAT | 45 (all known variants) | 849 | |
| R | TTAGTTGCACACCACGGACA | |||
| F | GCATGGCACGCTTTGAGG | 59 (all known variants) | 806 | |
| R | GTTTGCTGCACACAAAGGACA | |||
| F | GGTCACGACCGAAAACGG | 68 (A2, B, D1, D2, E, F1, F2) | 815 | |
| R | AGCAGYTSYAGCTTCCGCA | 68 (C1, C2, D1, D2, E, F1, F2) | ||
| F | GKGACCGRAARCGGTCAT | 68 (C1, C2) | 830 | |
| R | AACAGCTGYTSTAGTGTCCG | 68 (A2, B) | ||
| α 9 | F | AGGGYGTAACCGAAAACGGT | 52, 58 (all known variants) | 801 (HPV52) 828 (HPV58) |
| R | CCGGGGCACACAACTTGTAA | 52 (all known variants) | ||
| R | ACAGCTAGGGCACACAATGG | 58 (A1, A2, A3, B1, B2, D1) | ||
| R | GCTGTAGGGTTCGTSCTTCA | 58 (C, D2) | 785 | |
| F | AGGGCGTAACCGAAATCGGT | 16 (A1, A2, A3, A4, D1, D2, D3) | 830 | |
| R | TGAGAACAGATGGGGCACAC | 16 (A1, A2, A3, B1, B2, C, D1, D2, D3) | ||
| F | TTGMACCGAAACCGGTTAGT | 16 (B1, B2, C) | 807 | |
| R | RCAGATGGGGCACACAATTC | 16 (A4) | ||
| F | GGTGAACCGAAAACGGTTGG | 31 (all known variants) | 793 | |
| R | GGGGCACACGATTCCAAATG | |||
| F | AAGTAGGGTGTAACCGAAAGCG | 33 (all known variants) | 787 | |
| R | TGCTGTATGGTTCGTAGGTCAC | |||
| F | ACGGTTGCCATAAAAGCAGAA | 35 (all known variants) | 827 | |
| R | TCTCTGTGAACAGCCGGGG |
F: forward; R: reverse; * The 454-specific adapters were added to the 5′ end of both F and R primers, together with a 10-base multiplex identifier; § For each primer, the target genotype is reported; the variants that are covered by the corresponding primer are reported within round brackets.