Table 2 Nucleotide sequences of primers and probes used in RT-qPCR assays
Oligo name | Sequence (5′–3′) | Modification | Genome position | GenBank ID | References | |
|---|---|---|---|---|---|---|
5’ | 3’ | |||||
Usu_F | CAAAGCTGGACAGACATCCCTTAC | 10,189–10,212 | AY453412 | [17] | ||
Usu_R | CGTAGATGTTTTCAGCCCACGT | 10,270–10,291 | ||||
Usu_Probe | AAGACATATGGTGTGGAAGCCTGATAGGCA | 6FAM | TMR | 10,226–10,255 | ||
ZIKV_F | CCGCTGCCCAACACAAG | 1191–1208 | AY632535 | [18] | ||
ZIKV_R | CCACTAACGTTCTTTTGCAGACAT | 1245–1268 | ||||
ZIKV_Probe | AGCCTACCTTGACAAGCAGTCAGACACTCAA | 5′-FAM | 3′-TAMRA | 1213–1243 | ||
CHIKV874 | AAAGGGCAAACTCAGCTTCAC | 874–894 | NC_004162 | [15] | ||
CHIKV961 | GCCTGGGCTCATCGTTATTC | 942–961 | ||||
CHIKV899-probe | CGCTGTGATACAGTGGTTTCGTGTG | 5′-FAM | 3′-BHQ1 | 899–923 | ||
WN3′NC-F | CAGACCACGCTACGGCG | 10,668–10,684 | DQ211652 | [16] | ||
WN3′NC-R | CTAGGGCCGCGTGGG | 10,770–10,756 | ||||
WN3′NC-probe | TCTGCGGAGAGTGCAGTCTGCGAT | 5′-FAM | TAMRA | 10,691–10,714 | ||