CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 278
Accession number AY352275
Name SF33
SubtypeB
CountryUSA
Sampling year 1984
PatientSF33
CommentsExperimental

AY352275 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:

ggactcggct tgctgaaagc gcgcacggca agaggcgagg ggcggcgact ggtgagtacg ccaaaaaatt ttgactagcg gaggctagaa ggagaga

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