CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3579
Accession number AF102209
Name SE5658
SubtypeB
CountrySweden
Submitted to NCBI 1998
Patient5658

AF102209 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 agaccagatt tgagcctggg agctctctgg ctaactaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc ttcaagtagt gt

The optimal secondary structure:


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