CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 930
Accession number AB287364
Name p05JPDR6737B13
SubtypeB
CountryJapan
Sampling year 2005
PatientNH2047

AB287364 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 USE region

The primary sequence:

accggggagt ggcgagccct cagatgctgc atataagcag ctgctttctg cctgtactgg gtctctctgg ttagaccaga tctgagcctg ggagctctct ggctgactag ggaacccact gcttaagcct caataaagct tgccttgagt gctttaagta gtgt

Isolates with identical sequences of region:

AB287365(#931)

The optimal secondary structure:


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