CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 295
Accession number AJ508596
Name 00NE95
Subtype0206
CountryNiger
Sampling year 2000

AJ508596 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 gttgatagtg ta-aaaatctc tagcagtggc gcccgaacag ggactcgaaa gcgaaagtta atagggactc gaaaacgaaa gtt---ccagaga agttctctcg acgcaggac

The optimal secondary structure:


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

STCU 2008-2010
Institute of Molecular Biology and Genetics 2008-2012