CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 165
Accession number AJ302646
Name 99SE-MP1299
SubtypeGroup O
CountrySenegal
Sampling year 1999
PatientMP1299

AJ302646 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 DIS SD and Psi hairpins

The primary sequence:

gggctcggct tagcggagtg cacccgctaa gaggcgagag gaactcacag aggggtgagt ---aaattt-g-ctg gcggtggcca gacctagggg aagggcgaag tctctagggg aggag

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