CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2741
Accession number AB485638
Name US2
SubtypeB
CountryUSA
Sampling year 1991
PatientUS2

AB485638 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 cgcacggcaa gaggcgaggg gcggcgaccg gtgagtacgc caaaaatttt tgactagcgg aggctagaag gagaga

Isolates with identical sequences of region:

AB485639(#2742) AB485640(#2743) AY173953(#246) HM586210(#3336) HM586211(#3337) HM586212(#3338)

The optimal secondary structure:


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