CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2321
Accession number FJ614889
Name 00LKD9_4067
SubtypeCRF02_AG
CountrySouth Korea (Ghana)
Sampling year 2000
PatientLKD

FJ614889 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 PBS domain

The primary sequence:

tgttggggga ctctggtaac taaaaatccc tcaaaccact ctaaac--tgct aaaaatctct agcagtggcg cccgaacagg gaccggaagt taatagggac tcgaaagcga aagtt---ccaga gaagctctct cgacgcaggg ac

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