CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3015
Accession number EF370374
Name 04LJH7_2371
SubtypeB
CountrySouth Korea
Sampling year 2004
PatientLJH

EF370374 isolate has foldings of [Core poly(A) site] [USE domain, TAR, polyA] [USE region] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing USE domain, TAR, polyA

The primary sequence:

cgagccctca gatgctgcat ataagcagct gctttctgcc tgtactgggt ctctctagtt ggaccagatt tgagcctggg agctttctgg ctagctaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc ttcaagtagt gt

The optimal secondary structure:


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