CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1768
Accession number EF370323
Name 01LHS2_2437
SubtypeB
CountrySouth Korea
Sampling year 2001
PatientLHS

EF370323 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 Core poly(A) site

The primary sequence:

ctgggtctct ctggttagac cagatcagag cctgggagct ctctggctag ctagggaacc cactgcttaa gcctcaataa agcttgcctt gagtgcttca agtagtgtgt gcccatctgt tgtgtgactc cggtacttag actctggtaa

Isolates with identical sequences of region:

AY839827(#1416) EF370325(#1769)

The optimal secondary structure:


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