CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 20
Accession number K02007
Name SF2, LAV2, ARV-2
SubtypeB
CountryUSA
Sampling year 1983
PatientARV-2

K02007 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 domain, TAR, polyA

The primary sequence:

cgt-ccctcag atgctgcata taagcagctg ctttttgcct gtactgggtc tctctggtta gaccagatct gagcctggga gctctctggc taactaggga acccactgct taagcctcaa taaagcttgc cttgagtgct tcaagtagtg t

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