CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2989
Accession number DQ287295
Name C54_5_2001
SubtypeB
CountryAustralia
Sampling year 2001
PatientC54

DQ287295 isolate has foldings of [Core poly(A) site] [USE domain, TAR, polyA] [USE region] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing USE region

The primary sequence:

-ctaactagag aacc-cactca gatgctgcat ataagcagct gctttctgcc tgtactgggt ctctctggtt agaccagatc tgagcctggg agctctctgg ctaactagag aacccactgc ttaagcctca ataaagcttg ccttgagtgc ttaaagtagt gt

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