CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1748
Accession number EF370297
Name 01HSJ4_2903
SubtypeB
CountrySouth Korea
Sampling year 2001
PatientHSJ

EF370297 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:

caacccctca catgctgcat ataagcagct gctttctgcc tgaactgggt ctctctggtt agaccagatc tgagcctggg agctctctgg ctagctaggg aacccactgc ttaaccctca ataaagcttg ccttgagggc ttcaagtagt gggtgcccgt ctgttgtgtg actctggtaa ctagagatcc ctcacacact tttagttagt gtggaaaatc tctagca

The optimal secondary structure:


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