Organism : Geobacter sulfurreducens | Module List :
hypothetical protein (NCBI)
Functional Annotations (1)
Regulation information for GSU2710(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|
Functional Enrichment for GSU2710
Module neighborhood information for GSU2710
|Gene||Common Name||Description||Module membership|
|GSU0102||selB||selenocysteine-specific translation elongation factor (NCBI)||335, 338|
|GSU0106||GSU0106||soj protein (VIMSS)||286, 335|
|GSU0115||pdxA||pyridoxal phosphate biosynthetic protein PdxA (NCBI)||200, 335|
|GSU0138||prfC||peptide chain release factor 3 (NCBI)||140, 275|
|GSU0167||GSU0167||conserved hypothetical protein, truncation (NCBI)||62, 140|
|GSU0176||GSU0176||conserved hypothetical protein (VIMSS)||173, 335|
|GSU0490||GSU0490||acetyl-CoA hydrolase/transferase family protein (VIMSS)||140, 225|
|GSU0551||GSU0551||conserved hypothetical protein (VIMSS)||173, 335|
|GSU0560||GSU0560||hypothetical protein (VIMSS)||179, 335|
|GSU0602||GSU0602||conserved hypothetical protein (VIMSS)||140, 275|
|GSU0649||rnhB||ribonuclease HII (NCBI)||42, 140|
|GSU0731||lpxC||UDP-3-0-acyl N-acetylglucosamine deacetylase (NCBI)||16, 140|
|GSU0812||GSU0812||nitrogen regulation protein NtrY, putative (VIMSS)||140, 285|
|GSU0834||GSU0834||hypothetical protein (VIMSS)||140, 190|
|GSU0887||GSU0887||conserved hypothetical protein (VIMSS)||144, 335|
|GSU0943||GSU0943||hypothetical protein (VIMSS)||304, 335|
|GSU1006||GSU1006||hypothetical protein (VIMSS)||265, 335|
|GSU1191||GSU1191||hypothetical protein (VIMSS)||335, 338|
|GSU1355||GSU1355||ISGsu7, transposase OrfA (VIMSS)||335, 341|
|GSU1356||GSU1356||ISGsu7, transposase OrfB (VIMSS)||47, 335|
|GSU1475||GSU1475||RNA methyltransferase, TrmH family, group 1 (VIMSS)||124, 335|
|GSU1609||GSU1609||outer membrane efflux protein (VIMSS)||159, 335|
|GSU1654||GSU1654||response regulator, putative (NCBI)||4, 140|
|GSU1820||GSU1820||protein-P-II uridylyltransferase, putative (VIMSS)||163, 335|
|GSU1823||GSU1823||hypothetical protein (VIMSS)||8, 140|
|GSU1870||GSU1870||GGDEF domain protein (VIMSS)||183, 335|
|GSU1940||GSU1940||sigma-54 dependent DNA-binding response regulator (VIMSS)||158, 335|
|GSU1941||GSU1941||sensor histidine kinase (VIMSS)||159, 335|
|GSU2238||gmk||guanylate kinase (NCBI)||140, 267|
|GSU2313||GSU2313||response regulator (VIMSS)||70, 140|
|GSU2316||GSU2316||mechanosensitive ion channel family protein (NCBI)||140, 257|
|GSU2362||GSU2362||transcriptional regulator, MarR family (VIMSS)||140, 159|
|GSU2455||GSU2455||conserved hypothetical protein (VIMSS)||163, 335|
|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|
|GSU2680||GSU2680||conserved hypothetical protein (VIMSS)||140, 225|
|GSU2710||GSU2710||hypothetical protein (NCBI)||140, 335|
|GSU2717||GSU2717||conserved hypothetical protein (VIMSS)||144, 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|
|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|
|GSU3108||rho||transcription termination factor Rho (NCBI)||183, 335|
|GSU3158||cysM||cysteine synthase b (VIMSS)||140, 258|
|GSU3209||GSU3209||iojap-related protein (VIMSS)||160, 335|
|GSU3215||GSU3215||hypothetical protein (VIMSS)||113, 140|
|GSU3282||GSU3282||siroheme synthase, N-terminal domain protein (NCBI)||260, 335|
|GSU3412||GSU3412||hypothetical protein (VIMSS)||49, 140|
|GSU3455||GSU3455||ABC transporter, permease protein, ABC-2 family (VIMSS)||129, 140|
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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