CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 819
Accession number AB254156
Name p02ZMJMC18
SubtypeC
CountryZambia
Sampling year 2002

AB254156 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 tcagaccaaa ag-gtgtgcgt ggaaaatctc tagcagtggc gcccgaacag ggacgcgaaa gcgaaagtaa gaccagagaa gatctctcga cgcaggac

The optimal secondary structure:


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