CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3312
Accession number GU647196
Name plwj11_6
SubtypeB'
CountryChina
Sampling year 1999
PatientLWJ

GU647196 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:

agcagccgct ttt-gcctgta ctgggtctct ctagtcagac cagatcagag cctgggagct ctctggctaa ctagggaacc cactgcttaa gcctcaatag agcttgcctt gagtgcttca agtagtgt

The optimal secondary structure:


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