Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 169
Accession number AJ291719
Name 99FR-MP129
CountryFrance (CAR)
Sampling year 1999

AJ291719 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:

ctaaccctca gatgctgcat aaaagcagcc gctcttcgct tgtactgggt ctctctagtt agaccagatc tgagcctggg agctctctgg ttagctggag aacccactgc ttaagcctca ataaagcttg ccttgagtgc tttaagtagt gtgtgcccat ctgttgtgtg actctggtaa ctagagatcc ctcagacc-tt ttagtccgtg tggaaaatct ctagca

The optimal secondary structure:

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