CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1463
Accession number AF254673
Name NT1_3
SubtypeD
CountryTanzania
Sampling year 1996
Patient1

AF254673 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 Complete poly(A) region

The primary sequence:

ctaaccctca gatgctgcat ataagcagct gccttttgcc tgtactgggt ctctcttgtt agaccaggtc -gagcctggga gctctctgga taacgaggga acccactgct taagcctcaa taaagcttgc cctgagtgcc taaagtagtg tgtgcccgtc tgttgtgtga ctctggtaa

The optimal secondary structure:


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