Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2760
Accession number AB485669
Name I_2478B
SubtypeGroup O
Submitted to NCBI 2009

AB485669 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 gaagctgcat ataagcagcc gctttctgct tgtaccgggt ctcggttaga ggaccaggtt tgagcccggg agctccctgg cctctggctg aacccgctgc ttaacgctca ataaagcttg ccttgagtga g--aagcagtgt gtgctcatct gttca---accct ggtatctaga gatccctcag atcacttaga ctgagtgaga aaaatctcta gca

Isolates with identical sequences of region:


The optimal secondary structure:

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