CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1912
Accession number FJ614888
Name 00LKD9_4066
SubtypeCRF02_AG
CountrySouth Korea (Ghana)
Sampling year 2000
PatientLKD

FJ614888 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:

tgttgtgtga ctctggtaac tagagatccc tcagaccact ctagactgcg ta-aaaatctt tagcagtggc gcccgaacag ggacctgaag ttaataggga cttgaaagcg aaagtt---ccag agaagctctc ttgacgcagg gac

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