CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1728
Accession number EF370255
Name 04CWS5_2699
SubtypeB
CountrySouth Korea
Sampling year 2004
PatientCWS

EF370255 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 ggcgaaccct cagatgctgc ataaaagcag ctgctttctg cctgtactgg gtctctctgg ttagaccaga tccgagcctg ggagctctct ggttgactag ggaacccact gcttaagtct caataaagct tgccttgagt gctttaagta gtgt

The optimal secondary structure:


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