CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3578
Accession number AF102208
Name SO5594
SubtypeAC
CountrySomalia
Submitted to NCBI 1998
Patient5594

AF102208 isolate has foldings of [USE domain, TAR, polyA] [USE region] [USE, TAR, polyA] .

The region encompassing USE region

The primary sequence:

gttgaggagt ggttaaccct cagatgctgc atataagcag ctgcttttcg cttgtactag gtctctcttg ttagaccaga ta-gagcctag gagctctctg gctagcgaag gaacccactg cttaagcctc aataaagctt gccttgagtg cttcaagtag tgt

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