Table 1.
Names, description and sequences of the primers and probes used for the real-time qPCR for HIV integrated DNA, US RNA, MS RNA, and SS RNA
| Name | Description | Sequence |
|---|---|---|
| MH535 | 1st rd forward 3'LTR | 5' -AACTAGGGAACCCACTGCTTAAG-3' |
| SB407 | 1st rd reverse Alu | 5' -TGCTGGGATTACAGGCGTGAG-3' |
| SL75 | 2nd rd forward | 5' -GGAACCCACTGCTTAAGCCTC-3' |
| SL76 | 2nd rd reverse | 5' -GTCTGAGGGATCTCTAGTTACC-3' |
| SL72 | beacon | FAM-CGGTCGAGTGCTTCAAGTAGTGTGTGCCCGTC CGACCG-TAMRA-3' |
| SL19 | US forward | 5' - TCTCTAGCAGTGGCGCCCGAACA-3' |
| SL20 | US reverse | 5' - TCTCCTTCTAGCCTCCGCTAGTC-3' |
| SL30 | US beacon | 5' FAM-CGGGAG TACTCACCAGTCGCCGCCCCTCGCC CTCCCG (Dabcyl) 3' |
| SL28 | MS Forward | 5' - CTTAGGCATCTCCTATGGCAGGAA - 3' |
| SL29 | MS reverse | 5' - TTCCTTCGGGCCTGTCGGGTCCC - 3' |
| SL38 | MS RNA beacon | 5' GGGCCT TCTCTATCAAAGCAACCCACCTCC AGGCCC -3' |
| 0dp 2137 | Universal forward | 5' CGCACGGCAAGAGGCAGG-3' |
| 0dp 2138 | US reverse | 5' CCCGCTTAATACCGACGCTCTCG-3' |
| 0dp 2140 | MS reverse | 5' GTCGGGTCCCCTCGGGATTGG-3' |
| 0dp 2139 | SS reverse | 5' AGGTTGCATTACATGTACTACTTACTGCTT-3' |
LTR = long terminal repeat; US = unspliced HIV RNA; MS = multiply spliced HIV RNA; SS = singly spliced HIV RNA