CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2128
Accession number AY932658
Name TZLM677
Subtype
CountryTanzania
Submitted to NCBI 2005
Patient677

AY932658 isolate has foldings of [PBS region] [Core poly(A) site] [123nt 3' terminus] [USE region] [227nt 3' terminus] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing 227 nt 3' terminus

The primary sequence:

ctagccctca gatgctgcat ataagcagct gcttttcgcc tgttctgggt ctctcttgtt agaccagatc -gagcccggga gctctctggc tagc-agggaa cccactgctt aagcctcaat aaagcttgcc ttgagtgctt taagtagtgt gtgcccgtct gttgtatgac tctggtaact agagatccct cagaccactc tagac--tgaga aaaatctcta gca

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