CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1295
Accession number AF196725
Name 92AN63
SubtypeD
CountryAngola
Sampling year 1992

AF196725 isolate has foldings of [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 Complete poly(A) region

The primary sequence:

ctaaccctca gatgctgcat ataagcagct gctttttgcc tgtactgggt ctctcttgtt ggaccagatc -gagcctggga gctctctggc tagcaaggga acccactgct taagcctcaa taaagcttgc cttgagtgct tcaagtagtg tgtgcccgtc tgttgtatga ctctggtaa

The optimal secondary structure:


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