CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 665
Accession number AM000055
Name 02CD.KTB035
SubtypeA4
CountryDRC
Sampling year 2002
PatientKTB035

AM000055 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 USE region

The primary sequence:

gttggggagt ggctaaccct cagatgctgc atataagcag ctgctttctg cttgtactgg gtctctcttg gtagaccaga ta-gagcctag gacctctctg actaccgaaa gaacccactg cttaagcctc aataaagctt gccttgagtc 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