Organism : Rhodobacter sphaeroides 2.4.1 | Module List :
Regulation information for RSP_2230(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 RSP_2230
|Gene||Common Name||Description||Module membership|
|RSP_0150||RSP_0150||chase sensor signal transducdtion histidine kinase (NCBI)||87, 214|
|RSP_0613||RSP_0613||hypothetical protein (NCBI)||214, 325|
|RSP_0760||mucS||transcriptional regulator, MarR family (NCBI)||17, 214|
|RSP_1041||RSP_1041||Malonyl CoA synthetase (NCBI)||214, 363|
|RSP_1127||ElaA||acetyltransferase, GNAT family (NCBI)||214, 231|
|RSP_1606||RSP_1606||Putative regulatory protein, GntR family (NCBI)||32, 214|
|RSP_1607||RSP_1607||Putative regulatory protein, GntR family (NCBI)||77, 214|
|RSP_1608||RSP_1608||Putative Zn-dependent dehydrogenase (NCBI)||32, 214|
|RSP_1609||RSP_1609||Putative altronate dehydrogenase (NCBI)||32, 214|
|RSP_1610||RSP_1610||altronate hydrolase (NCBI)||32, 214|
|RSP_1876||RSP_1876||hypothetical protein (NCBI)||105, 353|
|RSP_1877||coxI||Cytochrome c oxidase, aa3 type, subunit I (NCBI)||228, 353|
|RSP_1893||RSP_1893||Inositol monophosphatase family protein (NCBI)||214, 240|
|RSP_1926||RSP_1926||tRNA-Dihydrouridine synthase (NCBI)||214, 311|
|RSP_2188||RSP_2188||hypothetical protein (NCBI)||175, 214|
|RSP_2189||pccB||propionyl-CoA carboxylase beta chain (NCBI)||121, 214|
|RSP_2228||RSP_2228||PAS domain containing protein (NCBI)||58, 353|
|RSP_2229||RSP_2229||Chemotaxis multidomain, CheB methylesterase/CheR, Methylase (NCBI)||58, 353|
|RSP_2230||RSP_2230||response regulator receiver domain protein (NCBI)||214, 353|
|RSP_2696||RSP_2696||ABC transporter, fused ATPase and inner membrane subunits (NCBI)||214, 311|
|RSP_2717||RSP_2717||putative UUP ATPase (NCBI)||214, 311|
|RSP_2722||cysS||Cysteinyl-tRNA synthetase, class Ia (NCBI)||30, 214|
|RSP_2744||RSP_2744||hypothetical protein (NCBI)||214, 299|
|RSP_2915||phoR||Probable two-component sensor histidine kinase (NCBI)||213, 214|
|RSP_3004||RSP_3004||Possible Protein kinase (NCBI)||209, 214|
|RSP_3102||RSP_3102||putative sec-independent protein translocase protein, TatE (NCBI)||214, 306|
|RSP_3593||RSP_3593||hypothetical protein (NCBI)||214, 356|
|RSP_3665||RSP_3665||transcriptional regulator, LuxR family (NCBI)||214, 384|
|RSP_3731||RSP_3731||transcriptional regulator, DeoR family (NCBI)||259, 353|
|RSP_3732||RSP_3732||ABC sugar transporter, periplasmic binding protein (NCBI)||274, 353|
|RSP_3733||RSP_3733||ABC sugar transporter, fused ATPase domains (NCBI)||259, 353|
|RSP_3734||RSP_3734||ABC sugar transporter, inner membrane subunit (NCBI)||274, 353|
|RSP_3735||RSP_3735||ABC sugar transporter, inner membrane subunit (NCBI)||274, 353|
|RSP_3736||RSP_3736||hypothetical protein (NCBI)||259, 353|
|RSP_3738||RSP_3738||Carbohydrate kinase, PfkB family (NCBI)||274, 353|
|RSP_3739||RSP_3739||deoxyribose phosphate aldolase (NCBI)||259, 353|
|RSP_3740||RSP_3740||aldehyde dehydrogenase (NCBI)||274, 353|
|RSP_4298||RSP_4298||tRNA-Trp (NCBI)||75, 214|
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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If the gene is a member of a module, regulators influencing that module are also considered to regulate the gene. Regulators table list total number of regulatory influences, regulators, modules and type of the influence.
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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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