CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 400
Accession number AY455783
Name 99UFRJ-9
SubtypeBF
CountryBrazil
Sampling year 1999
PatientRJ9

AY455783 isolate has foldings of [DIS region] [PBS region] [Core poly(A) site] [123nt 3' terminus] [USE domain, TAR, polyA] [227nt 3' terminus] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing Complete poly(A) region

The primary sequence:

cgagccctca gatgctgcat ataagcagct gcttttcgcc tgtactgggt ctctctggtt aaaccagatc tgagcctggg agctctctgg ctagctaggg aacccactgc ttaagcctca ataaagcttg ccttaagtgc tttaagtagt gtgtgcccgt ctgttgtgta actctggtaa

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