CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1044
Accession number EU448295
Name 04FR-AUK
SubtypeCRF45_cpx
CountryFrance (DRC)
Sampling year 2004
PatientAUK

EU448295 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:

caaaccctca gatgctgcat ataagcagct gctttttgcc tgtactgggt ctctctaggt agaccagatc tgagcctggg agctctctgg ctatctaggg aaccctcagc ttaagcctca ataaagcttg ccttgagtgc ttcaagtagt gtgtgcccgt ctgttgtgtg actctggtaa ctagagatcc ctcagaccac tctaggcggt gta-aaaatct ctagca

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