CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 672
Accession number AY586544
Name R77
SubtypeCRF20_BG
CountrySpain (Cuba)
Sampling year 1999
PatientR77

AY586544 isolate has foldings of [DIS region] [PBS region] [Core poly(A) site] [123nt 3' terminus] [USE domain, TAR, polyA] [227nt 3' terminus] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing 227 nt 3' terminus

The primary sequence:

ctaaccccca gatgctgcat ataagcagcc gcttctcgcc tgtactgggt ctctcttgct agaccagatc tgagcctggg agctctctga ctagcagggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc tttaagtagt gtgtgcccgt ctgttgtgtg actctggtaa ctagagatcc ctcagaccac tctagtcagt 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