CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1354
Accession number AF413989
Name 98BY10443 clone 2-ltr
SubtypeCRF03_AB
CountryBelarus (Russia)
Sampling year 2000
PatientBY10443

AF413989 isolate has foldings of [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 Complete poly(A) region

The primary sequence:

ctaaccctca gatgctgcat ataagcagct gcttttcgcc tgtactgggt ctctcttgtt agaccagatc -gagcctggga gctctctggc tagctaggga acccactgct taagcctcaa taaagcttgc cttgagtgct ttaagtagtg tgtgcccgtc tgttgtatga ctctggtaa

Isolates with identical sequences of region:

AF413988(#1353) AF414006(#286) HM583635(#3875)

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