CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 739
Accession number AB231898
Name GHNJ196
SubtypeCRF02_AG
CountryGhana
Sampling year 2003

AB231898 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 PBS domain

The primary sequence:

tgttgtgtga ctctggtaac tagagatccc tcagaccaat ttagtcttgg ta-aaaatctc tagcagtggc gcccgaacag ggaccggaag ttaataggga cgcgaaagcg aaagttccag agaag-tatct cgacgcacgg ac

The optimal secondary structure:


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