Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1733
Accession number EF370263
Name 95KYR11_2891
CountrySouth Korea
Sampling year 1995

EF370263 isolate has foldings of [DIS 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 227 nt 3' terminus

The primary sequence:

cgaaccctca gatgctgcat aaaagcagct gctctttgcc tgtactaggt ctctctggtt agaccagatc tgagcctagg agctctctgg ctagctaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc tttaagtagt gtgtgcccat ----tgtgtgactc tggtatctag agatccctca gaccctttta gtcagtgtag aaaatctcta gca

The optimal secondary structure:

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