CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 571
Accession number DQ295194
Name 04WK7-HIV-1 wk
SubtypeB
CountrySouth Korea
Sampling year 2004
PatientWK(JWK)

DQ295194 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 region

The primary sequence:

actggggagt ggcgagccct cagatgctgc ataaaagcag ccgctttttg cctgtactgg gtctctctgg ttagaccaga tctgagcctg ggagctctct ggctaactag ggaacccact gcttaagcct caataaagct tgccttgagt gctttaagta gtgt

Isolates with identical sequences of region:

EU047648(#1874) EU047649(#1845)

The optimal secondary structure:


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