CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2138
Accession number AY932668
Name TZLM601
Subtype
CountryTanzania
Submitted to NCBI 2005
Patient601

AY932668 isolate has foldings of [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 ataagcggct gctttttgcc tgtactgggt ctctcttgtt agaccagatt tgagcctgag agctctctgg ctagctaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc ttcaagtagt gtgtgcccat ctgttgcg--ac tctggtaact ggagatccct cagacctctt tagtcagtgt ggaaaatctc tagca

The optimal secondary structure:


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

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Institute of Molecular Biology and Genetics 2008-2012