CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1822
Accession number AY610971
Name 03SP97646
SubtypeB
CountrySpain (Switzerland)
Sampling year 2003

AY610971 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 USE, TAR, polyA

The primary sequence:

agcagctgct ttgtgcctgt acggggtctc tctggttaga ccagatctga gcctgggagc tctctggctg actagggaac ccactgctta agcctcaata aagcttgcct tgagtgcttc aagtagtgt

The optimal secondary structure:


The suboptimal structures within ΔΔG ≤ 4 kcal/mole of the minimum free energy