CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1978
Accession number AF239656
Name TZB0024 I4LTR
SubtypeA
CountryTanzania
Sampling year 1996
Patient4-baby

AF239656 isolate has foldings of [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 gatgctgcat ataagcagct gcttttcgcc tgtactgggt ctctctggtt agaccagatt tgagcctgag agctctctgg ctagctaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc ctaaagtagt gtgtgcccgt ctgttgtgtg actctggtaa ctagagatcc ctcagacctc tttagtccgt gtggaaaaat ctctagca

Isolates with identical sequences of region:

AF096642(#1924)

The optimal secondary structure:


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