CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1416
Accession number AY839827
Name 04LHS6
SubtypeB
CountrySouth Korea
Sampling year 2004
PatientLHS

AY839827 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, TAR, polyA

The primary sequence:

agcagccgct ttctgcttgt actgggtctc tctggttaga ccagatcaga gcctgggagc tctctggcta gctagggaac ccactgctta agcctcaata aagcttgcct tgagtgcttc aagtagtgt

Isolates with identical sequences of region:

EF370323(#1768) EF370325(#1769)

The optimal secondary structure:


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