Table 2 Primers used for amplicon generation
a. Barcode sequences | ||
|---|---|---|
Barcode | Sequence (5′→3′) | |
RL1 | ACACGACGACT | |
RL2 | ACACGTAGTAT | |
RL3 | ACACTACTCGT | |
RL4 | ACGACACGTAT | |
RL5 | ACGAGTAGACT | |
RL6 | ACGCGTCTAGT | |
RL7 | ACGTACACACT | |
RL8 | ACGTACTGTGT | |
RL9 | ACGTAGATCGT | |
RL10 | ACTACGTCTCT | |
RL11 | ACTATACGAGT | |
RL12 | ACTCGCGTCGT | |
RL13 | AGACTCGACGT | |
RL14 | AGTACGAGAGT | |
RL15 | AGTACTACTAT | |
RL16 | AGTAGACGTCT | |
b. HIV-1 sequences common to WT and MK transcripts | ||
Primer | Sequence | Amplicon length (nt) |
G1(2945)Fw | 5′ GAGATGGGTGCGAGAGCGTC 3′ | 370 |
G1(3314)Rv | 5′ TGTGTCAGCTGCTGCTTGCTG 3′ | |
G2(3236)Fw | 5′ ACCAAGGAAGCCTTAGATAAGATAGAGGAAGAG 3′ | 444 |
G2(3679)Rv | 5′ TGAAGGGTACTAGTAGTTCCTGCTATGTCACTTC 3′ | |
G3(3584)Fw | 5′ GATAGATTGCATCCAGTGCATGCAG 3′ | 372 |
G3(3955)Rv | 5′ GCTTTTAAAATAGTCTTACAATCTGGGTTCGC 3′ | |
G4(3793)Fw | 5′ TCTGGACATAAGACAAGGACCAAAGG 3′ | 403 |
G4(4195)Rv | 5′ ACATTTCCAACAGCCCTTTTTCCTAG 3′ | |