CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1923
Accession number AF096641
Name TZB0003
SubtypeA
CountryTanzania
Sampling year 1996
Patient3

AF096641 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 cttggtagac cagat-tgagc ctgggagctc tctggctagc gagggaaccc actgcttaaa gcctcaataa agcttgcctt gagtgactca agcagtgtgt gcccatctgt tgtttgactc tggtaa

The optimal secondary structure:


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