CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2506
Accession number U51286
Name 92UG031
SubtypeA
CountryUganda
Sampling year 1992
PatientUG031

U51286 isolate has foldings of [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 123 nt 3' terminus

The primary sequence:

cactgcttaa gcctcaataa agcttgcctt gagtgcttca agtagtgtgt gcccgtctgt tttgtgactc tggtaactag agatccctca gaccactcta gactgtgta-a aaatctctag ca

Isolates with identical sequences of region:

AY817688(#1421)

The optimal secondary structure:


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