CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1312
Accession number AF196746
Name 97TH87
SubtypeCRF01_AE
CountryThailand
Sampling year 1997
Patient97TH87

AF196746 isolate has foldings of [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 gaagctgcat aaaagcagcc gcttttcgct tgtactgggt ctctcttgtt agaccaggtc -gagcccggga gctccctgac tagcaaggga acccactgct taaagcctca ataaagcttg ccttgagtgc ttaaagtggt gtgtgcccgt ctgtgttagg actctggtaa ctagagatcc ctcagaccac tctagactga gta-aaaatct ctagca

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