CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 728
Accession number AB220945
Name 93TH054
SubtypeCRF01_AE
CountryThailand
Sampling year 1993

AB220945 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 aaaagcagcc gcttttcgct tgtactgggt ctctcttgtt agaccaggtc -gagcccggga gctctctggc tagcaaggga acccactgct taaagcctca ataaagcttg ccttgagtgc ttgaagtggt gtgtgcccgt ctgtgttagg actctggtaa

Isolates with identical sequences of region:

AB052609(#1065)

The optimal secondary structure:


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