Table 2.
Primers Used for Nested PCR Amplification of Five Overlapped Segments
| Segment | Primer | Gene | Locationa | Sequence |
|---|---|---|---|---|
| 1 | F: 174A | gag–pol | 683 ⇒ 707 | CTCTCGACGCAGGACTCGGCTTGCT |
| R: RT2-28 | 3012 ⇐ 3031 | TGGAATATTGCTGGTGATCC | ||
| 2 | F: RT3-27 | pol–int | 2798 ⇒ 2818 | AACTCAAGACTTCTGGGAAGT |
| R: Pol-3′ | 4899 ⇐ 4919 | GCTGTCCCTGTAATAAACCCG | ||
| 3 | F: pol/tat-5′ | int–env | 4808 ⇒ 4829 | GTACAGTGCAGGGGAAAGAATA |
| R: env SB-3′ | 6990 ⇐ 7010 | ATTTAACAGCAGTTGAGTTGA | ||
| 4 | F: 106A | env | 6867 ⇒ 6889 | ATACATTATTGTRCTCCRGCTGG |
| R: env (Y,Y)b | 8288 ⇐ 8308 | AAACCTAYYAAGCCTCCTACT | ||
| SK69c | 7911 ⇐ 7937 | CCAGACTGTGAGTTGCAACAG | ||
| 5 | F: env/nef (R,Y)b | env-3′L | 8221 ⇒ 8243 | GGRCAAGTYTGTGGAATTGGTTT |
| SK68c | TR | 7796 ⇒ 7815 | AGCAGCAGGAAGCACTATGG | |
| R: MSR5 | 9606 ⇐ 9627 | CAAGGCAAGCTTTATTGAGGCT | ||
| 2–3 | F: pol/seq2 | pol–vif | 3876 ⇒ 3901 | GATGGGGCAGCTARYAGGGARACTAA |
| R: vif365B | 5782 ⇐ 5805 | GGGTGTCGACATAGCAGAATAGGC |
a
Location is in reference to HIV HXB2 (K03455).
b
Primer used for 07IDJKT189.
c
Primer used for 07IDJKT194.