CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1837
Accession number EU047639
Name 01OSG6_3327
SubtypeB Korean
CountrySouth Korea
Sampling year 2001
PatientDNR-O(OSG)

EU047639 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 gatgctgcat aaaagcagct gctttttgcc tgtactgggt ctctctggtt agaccagatc agagcctggg agctctctgg ctgactaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc tttaagtagt gtgtgcccgt ctgttgtgtg actctggtaa ctagagatcc ctcagaccct tgtagtcagt gtggaaaatc tctagca

The optimal secondary structure:


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

STCU 2008-2010
Institute of Molecular Biology and Genetics 2008-2012