CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 275
Accession number AB098332
Name pUG029-A3
SubtypeA1
CountryUganda
Sampling year 1992
PatientUG029

AB098332 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 227 nt 3' terminus

The primary sequence:

ctaaccctca gatgctgcat ataagcagct gcttttcgcc tgtactgggt ctctcttgtt agaccagata -gagtctggga actctctggc tagcgaggga acccactgct taagcctcaa taaagcttgc cttgagtgct ttaagtagtg tgtgcccgtc tgttgtgtga ctctggtaac tagagatccc tcagaccact ctagaaggtg ta-aaaatctc tagca

Isolates with identical sequences of region:

AB098333(#276)

The optimal secondary structure:


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