CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1311
Accession number AF196745
Name 97TH92
SubtypeCRF01_AE
CountryThailand
Sampling year 1997
PatientTH92

AF196745 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, TAR, polyA

The primary sequence:

agcagccgct tttcgcttgt actgggtctc tcttgttaga ccaggtc-gag cctgggagct ctctggctag caggggaacc caccgcttaa agcctcaata aagcttgcct tgagtgcttg aagtggtgt

The optimal secondary structure:


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