CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2968
Accession number FJ432065
Name NII_PGI_IND_VTE8
SubtypeC
CountryIndia
Sampling year 2008

FJ432065 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:

ac-ggggagtg gtcaaccctc agatgctgca tataagcagc tgcttttcgc ctgtactgg-t ctctctaggt agaccagatc tgagcctggg agctctctgg ctatctaggg aacccactgc ttaagc-tcaa taaagct-gcc t-gagtgctct gagcagtgt

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