CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 59
Accession number AF084936
Name DRCBL
SubtypeG
CountryBelgium (DRC)
Sampling year 1996
PatientBL

AF084936 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:

ctaaccctca gaagctgcat ataagcagcc gcttctcgcc tgtactgggt ctctcttgtt agaccagatt tgagcctggg agctctctgg ctagcagggg aacccactgc ttagagcctc aataaagctt gccttgagtg cttcaagtag tgtgtgcccg tctgttgtgt gactctggta actagagatc cctcagacca ctctagatag tgta-aaaatc tctagca

The optimal secondary structure:


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