CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3871
Accession number HM583631
Name Vin42
SubtypeA1
CountryUkraine
Sampling year 2009

HM583631 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:

ccaaccctca gatgctgcat ataagcagct gcttttcgct tgtactgggt ctctctggtt agaccagat-t gagcctggga gctctctggc tagctaggga acccactgct taagcctcaa taaagcttgc cttgagtgct ttaagtagtg tgtgcccgtc tgttgtatga ctctggtaac tagagatccc tcagaccact ctaggcggtg ta-aaaatctc tagca

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