CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1726
Accession number EF370247
Name 98CWS4_2689
SubtypeB
CountrySouth Korea
Sampling year 1998
PatientCWS

EF370247 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 227 nt 3' terminus

The primary sequence:

cgaaccctca aatgctgcat aaaagcaggt gctttttgcc tgtactgagt ctctctggtt agaccagatc tgagcctaaa agctctctgg ctgactagga aacccactgc ttaagcctca ataaagcttg ccttaagtgc tttaagtagt gtgtgcccgt ctgttgtgta actctggtaa ctaaaaatcc ctcagaccct tttagtcagt gtaaaaaatc tctagca

The optimal secondary structure:


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