Organism : Geobacter sulfurreducens | Module List :
Regulation information for GSU1948(Mouseover regulator name to see its description)
Motif information (de novo identified motifs for modules)
There are 4 motifs predicted.
|Motif Id||e-value||Consensus||Motif Logo|
Module neighborhood information for GSU1948
|Gene||Common Name||Description||Module membership|
|GSU0121||GSU0121||nickel-iron hydrogenase, b-type cytochrome subunit (VIMSS)||14, 266|
|GSU0181||GSU0181||lipoprotein, putative (VIMSS)||292, 325|
|GSU0182||GSU0182||lipoprotein, putative (VIMSS)||46, 292|
|GSU0260||GSU0260||universal stress protein family (VIMSS)||14, 178|
|GSU0331||htrA||trypsin domain/PDZ domain protein (NCBI)||91, 292|
|GSU0394||GSU0394||AcrB/AcrD/AcrF family protein (VIMSS)||14, 229|
|GSU0411||fliG||flagellar motor switch protein FliG (NCBI)||14, 186|
|GSU0538||GSU0538||heat shock protein, Hsp20 family (NCBI)||292, 325|
|GSU0571||folA||dihydrofolate reductase (NCBI)||14, 281|
|GSU0658||clpB||ClpB protein (NCBI)||292, 325|
|GSU0659||GSU0659||polysaccharide deacetylase domain protein (VIMSS)||14, 97|
|GSU1018||GSU1018||hypothetical protein (VIMSS)||292, 325|
|GSU1031||GSU1031||hypothetical protein (VIMSS)||14, 337|
|GSU1064||GSU1064||hypothetical protein (VIMSS)||14, 220|
|GSU1154||GSU1154||surface repeat protein, putative (NCBI)||14, 268|
|GSU1204||GSU1204||sodium/hydrogen exchanger family/TrkA domain protein (VIMSS)||14, 282|
|GSU1247||GSU1247||hypothetical protein (VIMSS)||76, 292|
|GSU1300||GSU1300||methyl-accepting chemotaxis protein (VIMSS)||14, 78|
|GSU1320||GSU1320||sigma-54 dependent DNA-binding response regulator (VIMSS)||14, 174|
|GSU1371||GSU1371||oxidoreductase, FAD/FMN-binding (NCBI)||14, 107|
|GSU1477||lemA||LemA family protein (NCBI)||9, 292|
|GSU1478||GSU1478||conserved hypothetical protein (VIMSS)||292, 325|
|GSU1479||GSU1479||conserved hypothetical protein (VIMSS)||57, 292|
|GSU1482||GSU1482||outer membrane efflux protein (VIMSS)||14, 295|
|GSU1665||GSU1665||rhomboid family protein (VIMSS)||292, 325|
|GSU1765||SelGGPS||geranyltranstransferase (NCBI)||292, 321|
|GSU1877||fabK||oxidoreductase, 2-nitropropane dioxygenase family (NCBI)||71, 292|
|GSU1945||GSU1945||fibronectin type III domain protein (VIMSS)||292, 325|
|GSU1947||GSU1947||hypothetical protein (VIMSS)||57, 292|
|GSU1948||GSU1948||hypothetical protein (VIMSS)||14, 292|
|GSU2390||htpG||heat shock protein HtpG (NCBI)||292, 325|
|GSU2406||dnaJ||dnaJ domain protein (NCBI)||292, 325|
|GSU2407||GSU2407||hypothetical protein (VIMSS)||292, 325|
|GSU2408||hsp||heat shock protein, Hsp20 family (NCBI)||292, 325|
|GSU2409||GSU2409||heat shock protein, Hsp20 family (NCBI)||292, 325|
|GSU2410||GSU2410||heat shock protein, Hsp20 family (NCBI)||292, 325|
|GSU2495||GSU2495||cytochrome c family protein (NCBI)||91, 292|
|GSU2581||GSU2581||sigma-54 dependent transcriptional regulator (VIMSS)||14, 186|
|GSU2907||GSU2907||membrane protein, putative (VIMSS)||14, 109|
|GSU2959||GSU2959||membrane protein, putative (NCBI)||14, 213|
|GSU2981||GSU2981||TonB-dependent receptor, putative (VIMSS)||14, 148|
|GSU3419||GSU3419||sensor histidine kinase (VIMSS)||14, 274|
Gene Page Help
If the gene is associated with a module(s), its connection to given modules along with other members of that module are shown as network by using CytoscapeWeb. In this view, each green colored circular nodes represent module member genes, purple colored diamonds represent module motifs and red triangles represent regulators. Each node is connected to module (Bicluster) via edges. This representation provides quick overview of all genes, regulators and motifs for modules. It also allows one to see shared genes/motifs/regulators among diferent modules.
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Identity of gene members in a module may help to identify potential interactions between different functional modules. Therefore, neighbor genes that share the same module(s) with gene under consideration are shown here. For each memebr, gene name, description and modules that contain it are listed.
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CircVisOur circular module explorer is adapted from visquick originally developed by Dick Kreisberg of Ilya Shmulevich lab at ISB for The Cancer Genome Atlas. We use simplified version of visquick to display distribution of module members and their interactions across the genome. This view provides summary of regulation information for a gene. The main components are;
- 1. All genomic elements for the organism are represented as a circle and each element is separated by black tick marks. In this example chromosome and pDV represent main chromosome and plasmid for D. vulgaris Hildenborough, respectively.
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