CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3874
Accession number HM583634
Name Vin58
SubtypeA1
CountryUkraine
Sampling year 2009

HM583634 isolate has foldings of [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 USE region

The primary sequence:

gttgaggagt ggctaaccct cagatgctgc atataagcag ctgcttttcg cctgtactag gtctctctgg ttagaccaga tc-gagcctag gagctctctg gctagctaag gaacccactg cttaagcctc aataaagctt gccttaagtg ctttaagtag tgt

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