CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1813
Accession number EU047610
Name 06CSR5_3098
SubtypeB
CountrySouth Korea (USA)
Sampling year 2006
PatientHP-21(CSR)

EU047610 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 123 nt 3' terminus

The primary sequence:

cactgcttaa gcctcaataa agcttgcctt gagtgcttca agtagtgtgt gcccgtctgt tgtgtgactc tggtaactag agatccctca gaccttttta gtcagtgtgg aaaatctcta gca

Isolates with identical sequences of region:

U81468(#2573)

The optimal secondary structure:


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