CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 61
Accession number AF119820
Name GR11_97PVCH
SubtypeCRF04_cpx
CountryGreece
Sampling year 1991
PatientGR11

AF119820 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:

ctaaccctca gatgctgcat aaaagcagcc gcttttcgcc tgtactgggt ctctctggtt aggccaggtc tgagcctggg agctctctgg ctagcttagg aacccattg-t tac-cctca-ta aag-tt-cct--ag tgcttcaagt agtgtgtgcc cgtctgttgt gtgactctgg taactagaga tccctcagac cactctagac tgtataaaaa atctctagta

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