CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 171
Accession number AJ291720
Name 99FR-MP1307
SubtypeCRF11_cpx
CountryFrance (CAR)
Sampling year 1999

AJ291720 isolate has foldings of [DIS region] [PBS region] [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 USE domain, TAR, polyA

The primary sequence:

ctaaccctca gatgctgcat aaaagcagcc gcttttcgct tgtactgggt ctctctagtt agaccagatc tgagcctggg agctctcggt ctagctgggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc ctaaagtagt 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