Organism : Geobacter sulfurreducens | Module List :
Regulation information for GSU0765(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 GSU0765
|Gene||Common Name||Description||Module membership|
|GSU0130||fmt||methionyl-tRNA formyltransferase (NCBI)||172, 321|
|GSU0211||GSU0211||ABC transporter, permease protein, putative (VIMSS)||46, 321|
|GSU0535||cysK||cysteine synthase A (NCBI)||290, 321|
|GSU0693||GSU0693||sensory box histidine kinase (VIMSS)||103, 157|
|GSU0765||GSU0765||hypothetical protein (VIMSS)||103, 321|
|GSU0856||htpX||peptidase, M48 family (NCBI)||71, 321|
|GSU0874||GSU0874||hypothetical protein (VIMSS)||46, 321|
|GSU0959||GSU0959||hypothetical protein (VIMSS)||103, 179|
|GSU1264||GSU1264||conserved domain protein (VIMSS)||103, 105|
|GSU1265||GSU1265||sensor histidine kinase/response regulator (VIMSS)||103, 105|
|GSU1337||GSU1337||hypothetical protein (VIMSS)||203, 321|
|GSU1370||GSU1370||oxidoreductase, aldo/keto reductase family (NCBI)||57, 321|
|GSU1373||GSU1373||hypothetical protein (VIMSS)||59, 321|
|GSU1402||accA||acetyl-CoA carboxylase, carboxyl transferase, alpha subunit (NCBI)||20, 321|
|GSU1444||GSU1444||conserved hypothetical protein (VIMSS)||103, 295|
|GSU1500||GSU1500||hypothetical protein (VIMSS)||103, 105|
|GSU1501||GSU1501||ABC transporter, ATP-binding protein (VIMSS)||103, 303|
|GSU1502||GSU1502||prenyltransferase, UbiA family (VIMSS)||103, 105|
|GSU1503||GSU1503||glycosyl transferase, group 2 family protein (VIMSS)||103, 315|
|GSU1504||GSU1504||ABC transporter, permease protein, ABC-2 family (VIMSS)||103, 105|
|GSU1505||GSU1505||ABC transporter, ATP-binding protein (VIMSS)||103, 105|
|GSU1699||GSU1699||TonB-dependent receptor, putative (VIMSS)||38, 321|
|GSU1765||SelGGPS||geranyltranstransferase (NCBI)||292, 321|
|GSU1873||pepF||oligoendopeptidase F (NCBI)||103, 191|
|GSU1937||GSU1937||GGDEF domain/HAMP domain protein (NCBI)||203, 321|
|GSU2082||GSU2082||conserved hypothetical protein (VIMSS)||253, 321|
|GSU2100||katG||catalase/peroxidase (NCBI)||65, 321|
|GSU2184||GSU2184||polyA polymerase family protein (NCBI)||38, 321|
|GSU2185||GSU2185||flgM family protein (VIMSS)||114, 321|
|GSU2190||GSU2190||class II Aldolase and Adducin N-terminal domain protein (NCBI)||309, 321|
|GSU2196||GSU2196||hydrolase, putative (VIMSS)||203, 321|
|GSU2198||miaB||tRNA-i(6)A37 modification enzyme MiaB (NCBI)||203, 321|
|GSU2218||cheW-6||chemotaxis protein CheW (NCBI)||59, 321|
|GSU2290||pncA||pyrazinamidase/nicotinamidase, putative (NCBI)||46, 321|
|GSU2394||GSU2394||hypothetical protein (VIMSS)||321, 336|
|GSU2748||GSU2748||cytochrome c family protein, putative (NCBI)||103, 130|
|GSU2920||GSU2920||hypothetical protein (VIMSS)||38, 321|
|GSU2930||GSU2930||cytochrome c family protein (VIMSS)||253, 321|
|GSU2943||GSU2943||hypothetical protein (VIMSS)||103, 105|
|GSU2948||GSU2948||membrane protein, putative (NCBI)||103, 178|
|GSU2949||GSU2949||PAP2 family protein (VIMSS)||103, 146|
|GSU2950||GSU2950||ABC transporter, permease protein (VIMSS)||103, 130|
|GSU3111||GSU3111||hypothetical protein (VIMSS)||290, 321|
|GSU3165||GSU3165||conserved domain protein (NCBI)||103, 132|
|GSU3170||GSU3170||hypothetical protein (VIMSS)||103, 303|
|GSU3171||GSU3171||conserved domain protein (NCBI)||51, 103|
|GSU3172||GSU3172||conserved hypothetical protein (VIMSS)||103, 303|
|GSU3173||GSU3173||conserved hypothetical protein (VIMSS)||103, 327|
|GSU3175||GSU3175||hypothetical protein (VIMSS)||103, 303|
|GSU3177||GSU3177||Rhs family protein (NCBI)||103, 105|
|GSU3185||GSU3185||hypothetical protein (VIMSS)||103, 105|
|GSU3211||proA||gamma-glutamyl phosphate reductase (NCBI)||160, 321|
|GSU3295||GSU3295||conserved hypothetical protein (VIMSS)||38, 321|
|GSU3296||GSU3296||glycolate oxidase subunit GlcD, putative (VIMSS)||38, 321|
|GSU3297||GSU3297||iron-sulfur cluster-binding protein (NCBI)||38, 321|
|GSU3348||hslO||chaperonin, 33 kDa family (NCBI)||46, 321|
|GSU3404||GSU3404||amino acid ABC transporter, ATP-binding protein (VIMSS)||103, 117|
|GSU3407||GSU3407||membrane protein, putative (VIMSS)||18, 103|
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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