CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 237
Accession number AF411966
Name 99ZASW7
SubtypeC
CountrySouth Africa
Sampling year 1999
Patient7

AF411966 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 tcagaccctt tttggtagtg tggaaaatct ctagcagtgg cgcccgaaca gggacccgaa agcgaaagta agaccagaga agatctctcg acgcaggac

The optimal secondary structure:


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