CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1848
Accession number EU047652
Name 00HJY2_3312
SubtypeB Korean
CountrySouth Korea
Sampling year 2000
PatientHJY

EU047652 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 domain, TAR, polyA

The primary sequence:

cgagccctca gatgctgcat aaaagcagct gctttctgcc tgtactgggt ctctctggtt agaccagatc tgagcctggg agctctctgg ctgactaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc tttaagtagt gt

Isolates with identical sequences of region:

EF370327(#2259) EF370328(#1771)

The optimal secondary structure:


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