CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 228
Accession number AF197339
Name 93TH065
SubtypeCRF01_AE
CountryThailand
Sampling year 1993
PatientTH065

AF197339 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 123 nt 3' terminus

The primary sequence:

cactgcttaa agcctcaata aagcttgcct tgagtgctta aagtggtgtg tgcccgtctg tgttaggact ctggtaacta gagatccctc agaccactct agactgagt--a aaatctctag ca

Isolates with identical sequences of region:

AB220948(#731) AB485652(#2732)

The optimal secondary structure:


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