Helicobacter pylori v225d

The Pathosystems Resource Integration Center (PATRIC) , Virginia Bioinformatics Institute , Virginia Polytechnic Institute and State University, Virginia Bioinformatics Institute, USA, Blacksburg

Genome Size: 1.6073 megabases, Released Date: June 3, 2010 #19919

 Completed genome

Search Genome

Annotation search: search for genes and features in this genome

BLAST search: search for nucleotide or protein sequences in this genome

Pattern search: search for specific short patterns in this genome

This tool allows you to search within a genome for short DNA sequence patterns, such as a binding site consensus sequence. You can use any IUPAC code, so Ns, Rs, Ys etc. are allowed. Multipliers are contained in parentheses, so you can say A(14), which means a run of 14 As, or A(5 15) which means between 5 and 15 As. Square brackets indicate classes, so [AT] means either A or T. You can also have negatated classes (indicated by braces), so {AT} means neither A nor T. This tool uses the program fuzznuc, part of the EMBOSS software suite- see here for further documentation.

Restrict to region:   bp. upstream of a gene 
Leave blank for no restriction.

Report matches:  in any location within intergenic regions only overlapping genes only  

Allow  1 2 3 4 5 6 7 8 9  mismatched bases 

Sequences

References

• Host-interactive genes in Amerindian Helicobacter pylori diverge from their Old World homologs and mediate inflammatory responses
  Mane,S.P., Dominguez-Bello,M.G., Blaser,M.J., Sobral,B.W., Hontecillas,R., Skoneczka,J., Mohapatra,S.K., Crasta,O.R., Evans,C., Modise,T., Shallom,S., Shukla,M., Varon,C., Megraud,F., Maldonado-Contreras,A.L., Williams,K.P. and Bassaganya-Riera,J. J. Bacteriol. 192 (12), 3078-3092 (2010)
  PubMed, PubGet, HubMed

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