CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3191
Accession number AY047315
Name TV004
SubtypeC
CountrySouth Africa
Sampling year 1998
PatientTV004

AY047315 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 Core poly(A) site

The primary sequence:

ctgggtctct ctaggtagac cagatctgag cccgggagct ctctgactac ctagggaacc cactgcttaa gcctcaataa agcttgcct-g agtgctctaa gtagtgtgtg cccgtctgtt gtgtgactct ggtaa

The optimal secondary structure:


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