## Description

This track shows known HIV-1 genes and regions based on data from HIV Sequence Database.

## Methods

Protein sequences from the Numbering Positions in HIV Relative to HXB2CG page at HIV Sequence Database were aligned against the $organism genome using BLAT. Those alignments spanning less than 70% length of the protein sequence were discarded.

The variable regions (V1, V2, V3, V4, and V5) of ENV are also marked according to the genomic position data found at http://www.hiv.lanl.gov/content/hiv-db/MAP/old_map/Env.html.

## Credits

This track was produced at UCSC from protein sequence data obtained from the HIV Sequence Database.

## References

Korber BT, Foley BT, Kuiken CL, Pillai SK, Sodroski JG. Numbering Positions in HIV Relative to HXB2CG, p. III-102-III-111. In: Human retroviruses and AIDS 1998. Korber B, Kuiken C, Foley B, Hahn B, McCutchan F, Mellors J, Sodroski J, editors.

Kent WJ. BLAT - the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64.