CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3153
Accession number EU047697
Name 03HSJ9_3524s1
SubtypeB
CountrySouth Korea
Sampling year 2003
PatientHSJ

EU047697 isolate has foldings of [PBS region] [Core poly(A) site] [123nt 3' terminus] [USE domain, TAR, polyA] [USE region] [227nt 3' terminus] [USE, TAR, polyA] .

The region encompassing USE region

The primary sequence:

actggggagt ggcgagccct caaatgctgc atataagcag ctgctttctg cctgtactgg gtctctctgg ttagaccaga tctgagcctg ggagctctct ggctagctag ggaacccact gcttaagcct caataaaagc ttgccttgag tgcttcaagt agtgt

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