Table 1 Primers and probes used in qPCR.
Target | Oligonucleotide | Sequence 5′–3′ | Amplicon length (bp) | Reference | Oligonucleotide position on reference genome | |
|---|---|---|---|---|---|---|
From | To | |||||
HPV 16 | ||||||
E6 gene | Primer E6 F | 5′-AATGTTTCAGGACCCACAGG-3′ | 107 bp | This study on HPV16 reference genome NC_001526.4 NCBI | 7145 | 7164 |
Primer E6 R | 5′-GTTGCTTGCAGTACACACATTC-3′ | 7230 | 7251 | |||
Probe E6 | 5′-ACCACAGTTATGCACAGAGCTGCA-3′ | 7181 | 7204 | |||
E7 gene | Primer E7 F | 5′-TCAGAGGAGGAGGATGAAATAGA-3′ | 111 bp | 7697 | 7719 | |
Primer E7 R | 5′-GCACAACCGAAGCGTAGA-3′ | 7790 | 7807 | |||
Probe E7 | 5′-AGAACCGGACAGAGCCCATTACAA-3′ | 7738 | 7761 | |||
HPV18 | ||||||
E6 gene | Primer E6 F | 5′-ACCCTACAAGCTACCTGATCT-3′ | 100 pb | This study on HPV18 reference genome X05015.1 NCBI | 134 | 154 |
Primer E6 R | 5′-ACCTCTGTAAGTTCCAATACTGTC-3′ | 212 | 235 | |||
Probe E6 | 5′-ACGGAACTGAACACTTCACTGCAAGA-3′ | 159 | 184 | |||
E7 gene | Primer E7 F | 5′-AATTCCGGTTGACCTTCTATGT-3′ | 102 bp | 649 | 670 | |
Primer E7 R | 5′-GGCTGGTAAATGTTGATGAT-3′ | 723 | 742 | |||
Probe E7 | 5′-TAAGCGACTCAGAGGAAGAAA-3′ | 681 | 701 | |||
GAPDH | Primer F | 5′-GGACCTGACCTGCCGTCTAG-3′ | 99 pb | He et al. (2017)31 | ||
Primer R | 5′-TAGCCCAGGATGCCCTTGAG-3′ | |||||
Probe | 5′-CCTCCGACGCCTGCTTCACCACCT-3′ | |||||
HPV universal | MY09 | 5′-GCMCAGGGWCATAATAATGG-3′ | 450 pb | Cossellu et al. (2018)34 | ||
MY11 | 5′-CGTCCMARRGGAWACTGATC-3′ | |||||
