CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1325
Accession number AF196762
Name 97RO201
SubtypeF1
CountryRomania
Sampling year 1997

AF196762 isolate has foldings of [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 USE region

The primary sequence:

acaggggagt ggctaaccct cagatgctgc atataagcag ctgcttttcg cctgtaccgt gtctctctag ttataccata tctgatcctg ggagctctct ggctagctag ggaacccact gcttaagcct caataaagct tgccttgagt gcttcaagta gtgt

The optimal secondary structure:


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