Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1725
Accession number EF370246
Name 96CWS11_2692
CountrySouth Korea
Sampling year 1996

EF370246 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 227 nt 3' terminus

The primary sequence:

cgaaccctca gatgctgcat aaaagcagct gctttttgcc tgtactgggt ctctctggtt agaccagatc tgagcctggg agctctctgg ctgactaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc tttaagtagt gtgtgcccgt ctgttgtgtg actctggtaa ctagagatcc ctcagaccct tttagtcagt gtggaaaatc tctagca

Isolates with identical sequences of region:

EF370244(#1721) EF370245(#2240) EU047651(#1847) EU047687(#1883) EU047688(#1884)

The optimal secondary structure:

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