CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1216
Accession number AB191662
Name 9ZM20
SubtypeC
CountryZambia
Sampling year 1999
Patient20

AB191662 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 123 nt 3' terminus

The primary sequence:

cactgcttaa gcctcaataa agcttgcctt gagtgcttta agtagtgtgt gcccgtctgt tgtgtgactc tggtaactag agatccctca gacccttttg g-ctgtgtgga aaatctctag ca

The optimal secondary structure:


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