CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 168
Accession number AB052995
Name 93JP-NH1
SubtypeCRF01_AE
CountryJapan (Thailand)
Sampling year 1993
PatientNH1

AB052995 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 agactgaata -aaaatctcta gca

Isolates with identical sequences of region:

AB070353(#164) BD187399(#1087)

The optimal secondary structure:


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