CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2333
Accession number FJ614908
Name 04LKD7_4080
SubtypeCRF02_AG
CountrySouth Korea (Ghana)
Sampling year 2004
PatientLKD

FJ614908 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:

ctaggtctct cttgctagac cagatctgag cctaggagct ctctggctag -tggagaaccc gctgcttaag cctcaataaa gcttgccttg agtgcttaaa gtagtgtgtg cccgtctgtt gtgtgactct ggtaa

Isolates with identical sequences of region:

FJ614909(#2334) FJ614914(#2337)

The optimal secondary structure:


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