CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3653
Accession number DQ848487
Name ie12
SubtypeB
CountryUSA
Sampling year 1990
PatientE-child

DQ848487 isolate has foldings of [USE domain, TAR, polyA] [USE region] [USE, TAR, polyA] .

The region encompassing USE domain, TAR, polyA

The primary sequence:

cgagccctca gatgctgcat ataagcagct gctttttgcc tgtactgggt ctctctggtt agaccagatc tgagcctggg agttctctgg ctgactaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc ttcaagtagt gt

The optimal secondary structure:


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