CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3156
Accession number AY047300
Name TV005
SubtypeC
CountrySouth Africa
Sampling year 1998
PatientTV005

AY047300 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, TAR, polyA

The primary sequence:

agcagctgct tttcgcctgt actgggtctc tctaggtaga ccagatctga gcctgggagc tctctggcta tctagggaac ccactgctta agcctcaata aagcttgcct tgagtgctct aagtagtgt

Isolates with identical sequences of region:

AB485647(#2727) AF096639(#1920) AY932717(#2187)

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