CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1780
Accession number EF370341
Name 99KJG5_2725
SubtypeB
CountrySouth Korea
Sampling year 1999
PatientKJG(KR511)

EF370341 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:

agcagctgct ttttgcctgt actgggtctc tctggttaga ccagatcaga gcctgggagc tctctggcta gctagggaac ccactgctta agcctcaata aagcttgcct tgagtgcttc aagtagtgt

Isolates with identical sequences of region:

AY970948(#1153) AY970949(#1154) AY970950(#451)

The optimal secondary structure:


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