Table 1.

Primer sequences and probes used in this studya

Primer or probeSequenceCoordinates (nt)
Primers
PBS-659(−)5′-TTTCAGGTCCCTGTTCGGGCGCCAC-3′659–635b
R75′-GGGTCTCTCTGGTTAGACC-3′454–472b
U3NV5′-GGCTTCTTCTAACTTCTCTGGCTC-3′179–156b
LPNV5′-TCATGATCAATGGGACGATCACATG-3′Same as  B101c
U3PNV5′-GGTACTAGCTTGTAGCACCATCC-3′151–129b
U3-106(−)5′-CCTGGCCCTGGTGTGTAGTTC-3′106–86b
U3.1(+)5′-GGAAGGGCTAATTCACTCC-3′2–20b
Alu1645′-TCCCAGCTACTGGGGAGGCTGAGG-3′164–187d
Probee
U3-1062–106b
  • a For all other primer sequences and probes used in this study, see reference 31.

  • b HIVHXB2 GenBank accession numberK03455 .

  • c Reference 32.

  • d Reference 18.

  • e Probes were labeled with [α-32P]dATP and a commercially available kit (Amersham Megaprime).