CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2479
Accession number L28911
Name 4C6LTR
SubtypeB
CountryUSA
Submitted to NCBI 1994
Patient4

L28911 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:

actggggagg ggccggggag tggcgagccc tcagatgctg catataagca gccgcttttt gcctgtactg ggtctctctg gttagaccag atctgagcct gggagctctc tggctaacta gggaacccac tgcttaagcc tcaataaagc ttgccttgag tgctttaagt agtgt

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