CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2115
Accession number AY921355
Name TZMoL47494
SubtypeCRF10_CD
CountryTanzania
Sampling year 2000
Patient494

AY921355 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 USE region

The primary sequence:

accggggagt ggccaaccct cagatgctgc atataagcag ctgcttttcg cttgtactgg gtctctctag gtagaccaga tcagagcctg ggagctctct ggctatct-ga gaacccactg cttaagcctc aataaagctt gccttgagtg ct--aagtagtg t

The optimal secondary structure:


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

STCU 2008-2010
Institute of Molecular Biology and Genetics 2008-2012