CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1546
Accession number AM076846
Name PG56_55
SubtypeC
CountryMozambique
Sampling year 2003
PatientPG56

AM076846 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 tgctgaagtg cactcggcaa gaggcgagag -cggcgactgg tgagtacgcc aaattttatt tgactagcag aggctagaag gagaga

Isolates with identical sequences of region:

AF067156(#55) DQ164118(#555) DQ351229(#628)

The optimal secondary structure:


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