CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2979
Accession number DQ287276
Name D36_9_2000
SubtypeB
CountryAustralia
Sampling year 2000
PatientD36

DQ287276 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:

acgggggagt ggcgagccct cagatgctgc atataagcag ctgctttctg cctgtactgg gtctctctgg ttgggccaga tctgagcctg ggagctctct ggctaactag ggaacccact gcttaagcct caataaagct tgccttgagt gcttcaagta gtgt

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