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 USE, TAR, polyA

The primary sequence:

agcagctgct ttttgcctgt actgggtctc tcttgttgga ccagatc-gag cctgggagct ctctggctag caagggaacc cactgcttaa gcctcaataa agcttgcctt gagtgcttca agtagtgt

The optimal secondary structure:


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