CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 230
Accession number AF197341
Name 90CF4071
SubtypeCRF01_AE
CountryCAR
Sampling year 1990

AF197341 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 Core poly(A) site

The primary sequence:

ctgggtctct cttggtagac caggtc-gagc ccgggagctc tctggctagc aagggaaccc actgcttaag cctcaataaa gcttgccttg agtgcttaaa gtggtgtgtg cccgtctgtg ataggactct ggtaa

The optimal secondary structure:


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