CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 369
Accession number U51188
Name 90cf402, CAR_E
SubtypeCRF01_AE
CountryCAR
Sampling year 1990
Patient(61)

U51188 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 tgctgaggtg cacacagcaa gaggcgagag -cggcgactgg tgagtacgcc aaaaattttg actagcggag gctagaagga gaga

The optimal secondary structure:


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