CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 665
Accession number AM000055
Name 02CD.KTB035
SubtypeA4
CountryDRC
Sampling year 2002
PatientKTB035

AM000055 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 cagata-gagc ctaggacctc tctgactacc gaaagaaccc actgcttaag cctcaataaa gcttgccttg agtcctttaa gtagtgtgtg cccttctgtt gtgtgccttt ggtaa

The optimal secondary structure:


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