CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3020
Accession number EF592602
Name C59
SubtypeC
CountryIndia
Submitted to NCBI 2007

EF592602 isolate has foldings of [Core poly(A) site] [USE domain, TAR, polyA] [USE region] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing USE region

The primary sequence:

actggg-agtg gtcaaccctc agatgctgca tataagcagc tgcttttcgc ctgtactggg tctctctggg tagaccagat ttgagcctgg gagctctctg gctatctagg gaacccactg cttaagcctc aataaagctt gccttgagtg ctcagagcag tgt

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