Organism : Bacillus subtilis | Module List :
Regulation information for BSU38670(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 BSU38670
|Gene||Common Name||Description||Module membership|
|BSU00250||xpaC||putative phosphatase (RefSeq)||54, 68|
|BSU00260||yaaN||hypothetical protein (RefSeq)||54, 166|
|BSU00270||yaaO||putative lysine decarboxylase (RefSeq)||54, 225|
|BSU00280||tmk||thymidylate kinase (RefSeq)||54, 225|
|BSU00290||yaaQ||hypothetical protein (RefSeq)||54, 317|
|BSU00300||yaaR||hypothetical protein (RefSeq)||54, 173|
|BSU00310||holB||DNA polymerase III subunit delta' (RefSeq)||54, 173|
|BSU00320||yaaT||hypothetical protein (RefSeq)||54, 225|
|BSU00330||yabA||DNA replication intiation control protein YabA (RefSeq)||54, 173|
|BSU00890||yacL||hypothetical protein (RefSeq)||54, 388|
|BSU04330||mutT||putative NTP pyrophosphohydrolase (RefSeq)||164, 341|
|BSU04760||ydcG||hypothetical protein (RefSeq)||54, 323|
|BSU08690||ygaD||putative ABC transporter (ATP-binding protein) (RefSeq)||54, 377|
|BSU08960||yhbF||hypothetical protein (RefSeq)||54, 317|
|BSU09640||yhdY||putative integral membrane protein; putative small conductance mechano-sensitive channel (RefSeq)||54, 379|
|BSU10620||addB||ATP-dependent deoxyribonuclease (subunit B) (RefSeq)||54, 370|
|BSU10820||yisQ||putative Na+driven efflux transporter (RefSeq)||50, 164|
|BSU10830||yisR||putative transcriptional regulator (AraC/XylS family) (RefSeq)||50, 164|
|BSU10840||degA||transcriptional regulator (LacI family) (RefSeq)||50, 164|
|BSU14380||fruR||transcriptional regulator (DeoR family) (RefSeq)||22, 164|
|BSU14390||fruK||fructose-1-phosphate kinase (RefSeq)||22, 164|
|BSU14400||fruA||phosphotransferase system (PTS) fructose-specific enzyme IIABC component (RefSeq)||50, 164|
|BSU15850||sdaAB||L-serine dehydratase (beta chain) (RefSeq)||164, 228|
|BSU15860||sdaAA||L-serine dehydratase (alpha chain) (RefSeq)||164, 228|
|BSU15870||recG||ATP-dependent DNA helicase RecG (RefSeq)||164, 228|
|BSU17010||ymcB||(dimethylallyl)adenosine tRNA methylthiotransferase (RefSeq)||22, 164|
|BSU19230||yocJ||azoreductase (RefSeq)||66, 164|
|BSU21850||ypiP||putative methyltransferase (RefSeq)||164, 179|
|BSU23050||fmnP||FMN permease (RefSeq)||51, 54|
|BSU24850||glcK||glucose kinase (RefSeq)||54, 323|
|BSU24860||yqgQ||hypothetical protein (RefSeq)||54, 323|
|BSU29230||dnaE||DNA polymerase III DnaE (RefSeq)||54, 160|
|BSU32170||dapF||diaminopimelate epimerase (RefSeq)||164, 258|
|BSU33000||htrB||HtrA-like serine protease (RefSeq)||54, 323|
|BSU33010||cssR||two-component response regulator (RefSeq)||54, 310|
|BSU33370||yvgK||putative molybdate binding regulator (RefSeq)||164, 258|
|BSU35160||uvrA||excinuclease ABC subunit A (RefSeq)||54, 68|
|BSU35170||uvrB||excinuclease ABC subunit B (RefSeq)||54, 68|
|BSU38650||yxlG||putative ABC-transporter (permease) (RefSeq)||54, 164|
|BSU38660||yxlF||putative ABC transporter component (ATP-binding protein) (RefSeq)||52, 164|
|BSU38670||yxlE||negative regulator of sigma-Y activity (RefSeq)||54, 164|
|BSU38680||yxlD||putative sigma-Y antisigma factor component (RefSeq)||54, 164|
|BSU38690||yxlC||sigma-Y antisigma factor (RefSeq)||54, 164|
|BSU38700||sigY||RNA polymerase sigma factor SigY (RefSeq)||54, 164|
|BSU39400||pdp||pyrimidine-nucleoside phosphorylase (RefSeq)||22, 164|
|BSU39410||nupC||pyrimidine-nucleoside Na+(H+) cotransporter (RefSeq)||4, 164|
|BSU40060||gntK||gluconate kinase (RefSeq)||54, 323|
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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