CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 928
Accession number AB286956
Name p04JPDR6089B56
SubtypeB
CountryJapan
Sampling year 2004
Patient6089

AB286956 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:

cgagccctca gatgctgcat aaaagcagct gctttctgcc tgtactgggt ctctctggtt agaccagatc tgagcctggg agctctctgg ctagctaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc tttaaagtag tgtgtgcccg tctgttgtgt gactctggta actagagatc cctcagacca tttaagtcag tgtggaaaat ctctagca

Isolates with identical sequences of region:

AB286955(#927)

The optimal secondary structure:


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