Organism : Geobacter sulfurreducens | Module List :
Regulation information for GSU1823(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 GSU1823
|Gene||Common Name||Description||Module membership|
|GSU0085||GSU0085||heterodisulfide reductase, cytochrome reductase subunit (VIMSS)||8, 196|
|GSU0086||GSU0086||hypothetical protein (VIMSS)||8, 323|
|GSU0138||prfC||peptide chain release factor 3 (NCBI)||140, 275|
|GSU0167||GSU0167||conserved hypothetical protein, truncation (NCBI)||62, 140|
|GSU0289||GSU0289||conserved hypothetical protein (VIMSS)||8, 253|
|GSU0316||GSU0316||hypothetical protein (VIMSS)||8, 191|
|GSU0490||GSU0490||acetyl-CoA hydrolase/transferase family protein (VIMSS)||140, 225|
|GSU0512||GSU0512||conserved hypothetical protein (VIMSS)||8, 278|
|GSU0602||GSU0602||conserved hypothetical protein (VIMSS)||140, 275|
|GSU0649||rnhB||ribonuclease HII (NCBI)||42, 140|
|GSU0703||GSU0703||hypothetical protein (VIMSS)||8, 129|
|GSU0731||lpxC||UDP-3-0-acyl N-acetylglucosamine deacetylase (NCBI)||16, 140|
|GSU0812||GSU0812||nitrogen regulation protein NtrY, putative (VIMSS)||140, 285|
|GSU0821||GSU0821||conserved hypothetical protein (VIMSS)||8, 75|
|GSU0834||GSU0834||hypothetical protein (VIMSS)||140, 190|
|GSU0879||cheV||chemotaxis protein CheV (NCBI)||8, 212|
|GSU0934||GSU0934||hypothetical protein (VIMSS)||8, 164|
|GSU1048||GSU1048||SEC-C motif domain protein (VIMSS)||8, 47|
|GSU1216||cydC||transport ATP-binding protein CydC (NCBI)||8, 181|
|GSU1287||GSU1287||methyl accepting chemotaxis protein, putative (VIMSS)||8, 131|
|GSU1311||glk||glucose-6-phosphate isomerase (NCBI)||8, 205|
|GSU1544||GSU1544||hypothetical protein (VIMSS)||8, 105|
|GSU1654||GSU1654||response regulator, putative (NCBI)||4, 140|
|GSU1657||GSU1657||DNA internalization-related competence protein ComEC/Rec2 (VIMSS)||8, 225|
|GSU1823||GSU1823||hypothetical protein (VIMSS)||8, 140|
|GSU1840||GSU1840||PAP2 family protein (VIMSS)||8, 219|
|GSU1998||GSU1998||transporter, putative (VIMSS)||8, 99|
|GSU2099||GSU2099||sensory box protein, putative (VIMSS)||8, 276|
|GSU2238||gmk||guanylate kinase (NCBI)||140, 267|
|GSU2313||GSU2313||response regulator (VIMSS)||70, 140|
|GSU2316||GSU2316||mechanosensitive ion channel family protein (NCBI)||140, 257|
|GSU2332||GSU2332||hypothetical protein (VIMSS)||8, 47|
|GSU2362||GSU2362||transcriptional regulator, MarR family (VIMSS)||140, 159|
|GSU2514||GSU2514||hypothetical protein (VIMSS)||128, 140|
|GSU2560||GSU2560||hypothetical protein (NCBI)||140, 216|
|GSU2562||sixA||phosphohistidine phosphatase SixA (NCBI)||140, 157|
|GSU2587||GSU2587||transcriptional regulator, MarR family (VIMSS)||140, 183|
|GSU2622||GSU2622||HAMP domain/GAF domain/HD domain protein (NCBI)||8, 269|
|GSU2680||GSU2680||conserved hypothetical protein (VIMSS)||140, 225|
|GSU2710||GSU2710||hypothetical protein (NCBI)||140, 335|
|GSU2749||GSU2749||NOL1/NOP2/sun family protein (VIMSS)||130, 140|
|GSU2761||GSU2761||FAD-dependent glycerol-3-phosphate dehydrogenase subunit (VIMSS)||42, 140|
|GSU2826||GSU2826||membrane protein, putative (VIMSS)||140, 275|
|GSU2893||GSU2893||hypothetical protein (VIMSS)||130, 140|
|GSU2976||GSU2976||DedA family protein (VIMSS)||8, 176|
|GSU2978||GSU2978||hypothetical protein (VIMSS)||133, 140|
|GSU3039||GSU3039||hypothetical protein (VIMSS)||97, 140|
|GSU3069||murG||UDP-N-acetylglucosamine--N-acetylmuramyl- (pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase (NCBI)||140, 264|
|GSU3072||mraY||phospho-N-acetylmuramoyl-pentapeptide-transferase (NCBI)||140, 264|
|GSU3104||prfA||peptide chain release factor 1 (NCBI)||82, 140|
|GSU3107||rpmE||ribosomal protein L31 (NCBI)||113, 140|
|GSU3158||cysM||cysteine synthase b (VIMSS)||140, 258|
|GSU3215||GSU3215||hypothetical protein (VIMSS)||113, 140|
|GSU3310||GSU3310||hypothetical protein (VIMSS)||8, 47|
|GSU3382||GSU3382||hypothetical protein (VIMSS)||8, 176|
|GSU3384||GSU3384||cardiolipin synthetase, putative (VIMSS)||8, 231|
|GSU3412||GSU3412||hypothetical protein (VIMSS)||49, 140|
|GSU3455||GSU3455||ABC transporter, permease protein, ABC-2 family (VIMSS)||129, 140|
|GSU3463||gidB||glucose-inhibited division protein B (NCBI)||8, 71|
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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