In-depth Annotation Resources

HXB2 Genome Annotation

• HXB2 (.xls), the reference sequence for HIV-1 (last updated: Mon Jul 11 13:14 2016)
  An Excel spreadsheet with base-by-base detail of the genome/proteome landmarks. Includes the complete nucleotide genome of the reference sequence, showing all gene/protein boundaries. Many DNA, RNA, and protein features of interest are marked, including drug resistance mutations and important regulatory and structural regions.
• Feature Search Interface provides a searchable database of HXB2 (K03455) and Mac239 (M33262) start/stop coordinates. Contains approximately the same information as the spreadsheet above, but in a form that is searchable and useful for computer applications.
• Genomic Region List is a short list of coordinates for genes and regions, as used for the main sequence interface.

Mac239 (SIV) Genome Annotation

• Mac239 (.xls), the reference sequence for HIV-2 and SIV (last updated: Mon Jul 15 11:40 2013)
  An Excel spreadsheet with base-by-base detail of the genome/proteome landmarks. Includes the complete nucleotide genome of the reference sequence, showing all gene/protein boundaries. Many DNA, RNA, and protein features of interest are marked.
• Feature Search Interface provides a searchable database of HXB2 (K03455) and Mac239 (M33262) start/stop coordinates. Contains approximately the same information as the spreadsheet above, but in a form that is searchable and useful for computer applications.

HIV-1 Env-Antibody Interactions

• Env features and interactions with antibodies (.xls) (last updated: Tue Oct 11 14:14 2016)
  An Excel spreadsheet with base-by-base detail of the HIV-1 envelope gene. Includes major structural features, CD4 binding sites, entropy scores, binding sites of neutralizing antibodies (NAb), and residues that affect neutralization by specific NAbs.
• Neutralizing Antibody Contexts and Features Search contains the neutralizing antibody features from the spreadsheet above presented from a search interface.