HIV Consensus sequencing
Approximately half of the HIV patient volunteers for the IDB have had part (aa 1-173) of their viral Gag gene sequenced. These data are currently being prepared for submission to genbank. This gene was selected as it plays a central role in the biology of HIV infections and is a major target of the innate and adaptive immune systems.
HIV Cloned sequences
In addition some viral samples have been examined in great detail with several hundred full-length Gag cloned sequences have been depsosited in GenBank with accession numbers FN597659-FN600533. These cloned samples are available by arrangement, e.g.:http://www.ncbi.nlm.nih.gov/nuccore/FN597659. The figures below show the amino acid differences of these clones to a reference isolate of HIV (HXB2) and also as a phylogram.
HIV Gag amino acid sequences generated by the IDB
Top: map of the HIV-1 Gag polyprotein.
amino acid alignments of IDB generated sequences and those from the Los Alamos sequence database.
Differences to t6he HXB2 reference isolate are indicated on this diagram by different coloured boxes.
Phylogram of HIV-1 clade B Gag gene sequences
The complete genome of Staphylococcus aureus, some human papillomavirus type 16 DNA sequences of the E5 gene, Epstein Barr Virus are archived as well as and some various segments of Homo Sapiens.