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 227 nt 3' terminus

The primary sequence:

ctaaccctca gatgctgcat aaaagcagcc gcttttcgct tgtactgggt ctctcttggt agaccaggt-t gagcccggga gctctctggc taacaaggga acccactgct taaagcctca ataaagcttg ccttgagtgc ttaaagtggt gtgtgcccgt ctgtgttagg actctggtaa ctagagatcc ctcagaccac tctagactga gt--aaaatctc tagca

Isolates with identical sequences of region:

AB220948(#731)

The optimal secondary structure:


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

STCU 2008-2010
Institute of Molecular Biology and Genetics 2008-2012