CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1079
Accession number AF538306
Name C76
SubtypeB
CountryAustralia
Sampling year 1995
PatientC76

AF538306 isolate has foldings of [DIS region] [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 USE, TAR, polyA

The primary sequence:

agccgctgct ttt-gcctgta ctgggtctct ctggttagac cagatctgag cctgggagct ctctggctga ctagggaacc cactgcttaa gcctcaataa agcttgcctt gagtgcttca agtagtgt

The optimal secondary structure:


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