CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3183
Accession number AY047307
Name TV001
SubtypeC
CountrySouth Africa
Sampling year 1998
PatientTV001

AY047307 isolate has foldings of [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:

tcaaccctca gatgctgcat ataagcagct gcttttcgct tgtactgggt ctctctcggt agaccagatc tgagcctggg agctctctgg ctatctaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc tttaagtagt gtgtgcccat ctgttgtgtg actctggtaa ctagagatcc ctcagaccct ttgtggtagt gtggaaaatc tctagca

The optimal secondary structure:


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

STCU 2008-2010
Institute of Molecular Biology and Genetics 2008-2012