Organism : Geobacter sulfurreducens | Module List :
Regulation information for GSU2150(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 GSU2150
|Gene||Common Name||Description||Module membership|
|GSU0096||recR||recombination protein RecR (NCBI)||32, 142|
|GSU0182||GSU0182||lipoprotein, putative (VIMSS)||46, 292|
|GSU0183||GSU0183||lipoprotein, putative (VIMSS)||46, 325|
|GSU0210||GSU0210||conserved hypothetical protein (VIMSS)||46, 91|
|GSU0211||GSU0211||ABC transporter, permease protein, putative (VIMSS)||46, 321|
|GSU0362||GSU0362||hypothetical protein (VIMSS)||142, 183|
|GSU0492||xerD||site-specific recombinase, phage integrase family (NCBI)||46, 49|
|GSU0540||GSU0540||hypothetical protein (NCBI)||142, 156|
|GSU0844||GSU0844||potassium uptake protein, Trk family (VIMSS)||46, 97|
|GSU0862||folD-2||folD bifunctional protein (NCBI)||46, 126|
|GSU0874||GSU0874||hypothetical protein (VIMSS)||46, 321|
|GSU0963||ntrC||sigma-54 dependent DNA-binding response regulator (NCBI)||32, 142|
|GSU1021||GSU1021||hypothetical protein (VIMSS)||93, 142|
|GSU1068||GSU1068||sodium/solute symporter family protein (NCBI)||32, 142|
|GSU1069||GSU1069||conserved hypothetical protein (VIMSS)||32, 142|
|GSU1070||GSU1070||sodium/solute symporter family protein (NCBI)||32, 142|
|GSU1071||GSU1071||conserved hypothetical protein (VIMSS)||32, 142|
|GSU1190||GSU1190||conserved hypothetical protein (VIMSS)||46, 253|
|GSU1250||GSU1250||sigma-54 dependent DNA-binding response regulator (VIMSS)||46, 206|
|GSU1325||GSU1325||hypothetical protein (NCBI)||99, 142|
|GSU1332||GSU1332||heavy metal efflux pump, CzcA family (VIMSS)||46, 341|
|GSU1403||rluB||ribosomal large subunit pseudouridine synthase B (NCBI)||46, 201|
|GSU1837||GSU1837||peptidase, family M23/M37 domain protein (NCBI)||20, 46|
|GSU1875||ahcY||adenosylhomocysteinase (NCBI)||20, 46|
|GSU2005||GSU2005||branched-chain amino acid ABC transporter, periplasmic amino acid-binding protein, putative (NCBI)||135, 142|
|GSU2006||GSU2006||branched-chain amino acid ABC transporter, permease protein (NCBI)||135, 142|
|GSU2007||GSU2007||branched-chain amino acid ABC transporter, permease protein (NCBI)||135, 142|
|GSU2008||GSU2008||branched-chain amino acid ABC transporter, ATP-binding protein (NCBI)||135, 142|
|GSU2009||GSU2009||branched-chain amino acid ABC transporter, ATP-binding protein (VIMSS)||135, 142|
|GSU2010||GSU2010||CBS domain protein (VIMSS)||135, 142|
|GSU2092||GSU2092||conserved hypothetical protein (VIMSS)||142, 295|
|GSU2103||GSU2103||hypothetical protein (VIMSS)||142, 281|
|GSU2150||GSU2150||hypothetical protein (VIMSS)||46, 142|
|GSU2287||GSU2287||response regulator (VIMSS)||11, 46|
|GSU2288||GSU2288||sensor histidine kinase (VIMSS)||46, 77|
|GSU2289||GSU2289||nicotinate phosphoribosyltransferase, putative (NCBI)||46, 79|
|GSU2290||pncA||pyrazinamidase/nicotinamidase, putative (NCBI)||46, 321|
|GSU2357||GSU2357||conserved hypothetical protein (VIMSS)||32, 142|
|GSU2358||GSU2358||isoamylase family protein (VIMSS)||79, 142|
|GSU2361||GSU2361||alpha amylase family protein (VIMSS)||9, 142|
|GSU2476||GSU2476||TPR domain protein (VIMSS)||46, 220|
|GSU2490||GSU2490||oxalate/formate antiporter, putative (VIMSS)||32, 142|
|GSU2494||GSU2494||cytochrome c family protein (VIMSS)||46, 178|
|GSU2529||fusA-2||translation elongation factor G (NCBI)||9, 46|
|GSU2706||GSU2706||phosphate acetyltransferase (VIMSS)||32, 142|
|GSU2881||GSU2881||hypothetical protein (VIMSS)||122, 142|
|GSU2883||GSU2883||cytochrome c family protein (VIMSS)||20, 46|
|GSU2975||GSU2975||inorganic pyrophosphatase, manganese-dependent, putative (VIMSS)||46, 220|
|GSU3234||GSU3234||hypothetical protein (VIMSS)||142, 337|
|GSU3348||hslO||chaperonin, 33 kDa family (NCBI)||46, 321|
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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Network inference algorithm uses de novo motif prediction for assigning genes to modules. If there are any motifs identified in the upstream region of a gene, the motif will be shown here. For each motif sequence logo, consensus and e-value will be shown.
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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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- 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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