CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1557
Accession number AM076856
Name PG196_3
SubtypeC
CountryMozambique
Sampling year 2003
PatientPG196

AM076856 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 PBS domain

The primary sequence:

tgttgtgtga ctctggtaac tagagatccc tcagaccatt ttggtgt-tgt ggaaaatctc tagcagtggc gcccgaacag ggacccgaaa gcgaaagtaa gaccagagaa gaactctcga cgcaggac

The optimal secondary structure:


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