CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 454
Accession number AY588971
Name CU29
SubtypeCRF19_cpx
CountryCuba
Sampling year 1999
PatientCU29

AY588971 isolate has foldings of [DIS region] [PBS region] [Core poly(A) site] [123nt 3' terminus] [USE domain, TAR, polyA] [227nt 3' terminus] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing Core poly(A) site

The primary sequence:

ctgggtctct cctgctagac cagatttgag cctgggagct ctctggccag c-agggaaccc actgcttaag cctcaataaa agcttgcctt aagtgcttaa agtagtgtgt gcccgtctgt tgtgtgactc tggtaa

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