CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1772
Accession number EF370329
Name 05KMS4_2435
SubtypeB
CountrySouth Korea
Sampling year 2005
PatientKMS

EF370329 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 DIS SD and Psi hairpins

The primary sequence:

ggactcggct tgctgaagcg cgcacagcaa gaggcgaggg -cggcgactgg tgagtacgcc aaaaaatttt tgactagcgg aggctagaag gagaga

The optimal secondary structure:


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