CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2245
Accession number EF370254
Name 04CWS5_2698
SubtypeB
CountrySouth Korea
Sampling year 2004
PatientCWS

EF370254 isolate has foldings of [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:

ggaaccctca gatgttgcat aaaagcagcc gctttttgcc tgtattgggt ctttctggtc agaccagatc cgaccctggg agctttttgg ctgattaggg aacccactgc ttaagcctca aaaaagcttg cctggagtgc tttaagtagt gggggcccgt ctgttgtgtg attttggtaa ctagagatcc ctcagaccct tttagtcagt gtggaaaatc tttagca

The optimal secondary structure:


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