CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1306
Accession number AF196740
Name 93UG66
SubtypeAC
CountryUganda
Sampling year 1993
Patient93UG66

AF196740 isolate has foldings of [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 227 nt 3' terminus

The primary sequence:

ctaaccctca gatgctgcat ataagcagct gcttttcgcc tgtactgggt ctctctaggt agaccagatc tgagcctggg agctctctgg cta-c--gggaac ccactgctta agcctcaata aagcttgcct tgagtgctct aagtagtgtg tgcccgtctg ttgtgtgact ctggtaacta gagatccctc agacaccttt tgtcagtgtg gaaaatctct agca

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