CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2149
Accession number AY932679
Name TZLM669
Subtype
CountryTanzania
Submitted to NCBI 2005
Patient669

AY932679 isolate has foldings of [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 Core poly(A) site

The primary sequence:

ctgggtctct ctaggtagac cagatctgag cctgggagct ctctggctag ctagggaacc cactgcttaa gcctcaataa agcttgcctt gagtgcttta agtagtgtgt gcccatctgt tgtgtgactc tggtctgttg tgtgactctg gtaa

The optimal secondary structure:


The suboptimal structures within ΔΔG ≤ 4 kcal/mole of the minimum free energy