CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 922
Accession number AB287004
Name p03GH175G29
SubtypeG
CountryGhana
Sampling year 2003
Patient175

AB287004 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 tcagaccact ctagacagtg ta-aaaatctc tagcagtggc gcccgaacag ggacccgaaa gtgaaagtta atagggactc gaaagcgaaa gtt---ccagaga agttctctcg acgcaggac

Isolates with identical sequences of region:

AB231893(#734) AB287003(#921)

The optimal secondary structure:


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