Table 2. Gag and Pol HIV-1 CS numbered in HXB2 genome.
| HIV-1 | Gene | Protein | |||||
| No. | Name | Consensus-of-consensusesequence from GenBank | HXB2 sequence | Length (nucleotide) | Position (nucleotide) | Length (amino acid) | Position (amino acid) |
| #1 | P17/P24 | VSQNY/PIVQN | VSQNY/PIVQN | 30 | 1171–1200 | 10 | 390–399 |
| #2 | P24/P2 | KARVL/AEAMS | KARVL/AEAMS | 30 | 1864–1893 | 10 | 621–630 |
| #3 | P2/P7 | TT-IM/MQRGN | SATIM/MQRGN | 30 | 1906–1935 | 10 | 635–644 |
| #4 | P7/P1 | ERQAN/FLGKI | ERQAN/FLGKI | 30 | 2071–2100 | 10 | 690–699 |
| #5 | P1/P6 gag | RPGNF/LQSRP | RPGNF/LQSRP | 30 | 2119–2148 | 10 | 706–715 |
| #6 | P7/TFP | ERQAN/FFREN | ERQAN/FFRED | 30 | 2071–2100 | 10 | 690–699 |
| #7 | TFP/P6 pol | ENLAF/QQGEA | EDLAF/LQGKA | 30 | 2094–2123 | 10 | 698–707 |
| #8 | P6 pol /PR | VSLSF/PQITL | VSFNF/PQVTL | 30 | 2238–2267 | 10 | 746–755 |
| #9 | PR/RTp51 | CTLNF/PISPI | CTLNF/PISPI | 30 | 2535–2564 | 10 | 845–854 |
| #10 | RTp51/RTp66 | GAETF/YVDGA | GAETF/YVDGA | 30 | 3855–3884 | 10 | 1285–1294 |
| #11 | RTp66/IN | IRKVL/FLDGI | IRKVL/FLDGI | 30 | 4215–4244 | 10 | 1405–1414 |
Nucleotides and amino acids numbered according to HXB2 subtype B reference strain (GenBank accession number K03455). Pr160GagPol includes CS #1 to 11 and Pr55Gag includes CS #1 to 5. Underlined amino acids show the changes in the HXB2 sequence vs. the consensus-of-consensuses sequence from GenBank. P17, matrix; P24, capsid; P2, spacer peptide 1; P7, nucleocapside; P1, space peptide 2; PR, protease; RT, retrotranscriptase; IN, integrase; TFP, transframe protein; No., CS position in Gag and GagPol precursors; CS, cleavage site. Retrieved from http://www.hiv.lanl.gov/.