CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1917
Accession number AF096636
Name TZB0048
SubtypeAC
CountryTanzania
Sampling year 1996
Patient48

AF096636 isolate has foldings of [PBS region] [Core poly(A) site] [123nt 3' terminus] [USE domain, TAR, polyA] [USE region] [227nt 3' terminus] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing 123 nt 3' terminus

The primary sequence:

cactgcttaa gcctcaataa agcttgcctt gagtgcttca agtagtgtgt gcccgtctgt tgtgtgactc tggtaactag agatccctca gaccactcta gactgtgta-a aaatctctag ca

Isolates with identical sequences of region:

AF096633(#1914) AF196743(#1309) AY118156(#1989) AY118161(#1992) AY932653(#2123)

The optimal secondary structure:


The suboptimal structures within ΔΔG ≤ 4 kcal/mole of the minimum free energy