CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2453
Accession number L28885
Name 3A9LTR
SubtypeB
CountryUSA
Submitted to NCBI 1994
Patient3

L28885 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:

acaggggagt ggcgagccct cagatgctgc atataagcag ctgctttt-gc ctgtactggg tctctccggt tagaccagat ctgagcctgg gagctctctg gctaactagg gaacccactg cttaagcctc aataaagctt gccttgagtg ctttaagtag 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