Shewanella oneidensis MR-1

TIGR

Genome Size: 5.16 megabases, GC Content: 45.9%, Released Date: Oct. 9, 2002 #17433

 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

• Genome sequence of the dissimilatory metal ion-reducing bacterium Shewanella oneidensis
  Heidelberg,J.F., Paulsen,I.T., Nelson,K.E., Gaidos,E.J., Nelson,W.C., Read,T.D., Eisen,J.A., Seshadri,R., Ward,N., Methe,B., Clayton,R.A., Meyer,T., Tsapin,A., Scott,J., Beanan,M., Brinkac,L., Daugherty,S., DeBoy,R.T., Dodson,R.J., Durkin,A.S., Haft,D.H., Kolonay,J.F., Madupu,R., Peterson,J.D., Umayam,L.A., White,O., Wolf,A.M., Vamathevan,J., Weidman,J., Impraim,M., Lee,K., Berry,K., Lee,C., Mueller,J., Khouri,H., Gill,J., Utterback,T.R., McDonald,L.A., Feldblyum,T.V., Smith,H.O., Venter,J.C., Nealson,K.H. and Fraser,C.M. Nat. Biotechnol. 20 (11), 1118-1123 (2002)
  PubMed, PubGet, HubMed
• Reannotation of Shewanella oneidensis genome
  Daraselia,N., Dernovoy,D., Tian,Y., Borodovsky,M., Tatusov,R. and Tatusova,T. OMICS 7 (2), 171-175 (2003)
  PubMed, PubGet, HubMed

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