Organism : Clostridium acetobutylicum | Module List :
Regulation information for CAC2494(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 CAC2494
|Gene||Common Name||Description||Module membership|
|CAC0012||CAC0012||Predicted dehydrogenase with iron-sulfur domain (NCBI ptt file)||86, 328|
|CAC0053||CAC0053||Hypothetical protein (NCBI ptt file)||70, 86|
|CAC0081||agrA||Accessory gene regulator protein A (NCBI ptt file)||53, 86|
|CAC0199||CAC0199||Hypothetical protein (NCBI ptt file)||86, 244|
|CAC0309||CAC0309||Cell wall-associated hydrolase (NCBI ptt file)||4, 86|
|CAC0422||licT||Transcriptional antiterminator licT (NCBI ptt file)||86, 328|
|CAC0437||CAC0437||Sensory transduction histidine kinase (NCBI ptt file)||53, 352|
|CAC0639||CAC0639||Flagellar biosynthesis related protein (NCBI ptt file)||53, 298|
|CAC0716||smpB||TmRNA-binding protein SmpB (NCBI ptt file)||53, 304|
|CAC0761||CAC0761||Predicted membrane protein (NCBI ptt file)||66, 86|
|CAC0831||CAC0831||Sensory transduction histidine kinase (NCBI ptt file)||38, 53|
|CAC0910||CAC0910||Probably cellulosomal scaffolding protein precursor, secreted; cellulose-binding and cohesin domain (NCBI ptt file)||53, 63|
|CAC0912||CAC0912||Possible non-processive endoglucanase family 5, secreted; CelA homolog secreted; dockerin domain (NCBI ptt file)||53, 111|
|CAC0925||CAC0925||TPR-repeat-containing protein (NCBI ptt file)||53, 270|
|CAC1078||CAC1078||Predicted phosphohydrolase, Icc family (NCBI ptt file)||53, 267|
|CAC1169||CAC1169||Hypothetical protein (NCBI ptt file)||53, 134|
|CAC1170||xerD||Integrase/recombinase (xerD/xerC family) (NCBI ptt file)||53, 267|
|CAC1199||CAC1199||Hypothetical protein (NCBI ptt file)||86, 123|
|CAC1228||cisA||Site-specific DNA recombinase (NCBI ptt file)||26, 53|
|CAC1237||CAC1237||Hypothetical protein (NCBI ptt file)||86, 313|
|CAC1320||glpP||Glycerol-3-phosphate responsive antiterminator (mRNA-binding), GLPP (NCBI ptt file)||4, 86|
|CAC1406||CAC1406||Transcriptional antiterminator (BglG family) (NCBI ptt file)||86, 133|
|CAC1452||CAC1452||MDR-type permease (NCBI ptt file)||26, 53|
|CAC1460||CAC1460||PTS system, fructose(mannose)-specific IID (NCBI ptt file)||86, 136|
|CAC1555||CAC1555||Flagellin (NCBI ptt file)||53, 69|
|CAC1770||CAC1770||RNA polymerase sigma factor, SigK-like (NCBI ptt file)||53, 68|
|CAC1772||sacB1||Levansucrase (NCBI ptt file)||53, 148|
|CAC1914||CAC1914||Hypothetical protein (NCBI ptt file)||11, 53|
|CAC1994||moaB||Molybdopterin biosynthesis enzyme, MoaB (NCBI ptt file)||53, 68|
|CAC2013||CAC2013||Hypothetical protein (NCBI ptt file)||53, 97|
|CAC2015||CAC2015||Hypothetical protein (NCBI ptt file)||53, 97|
|CAC2079||CAC2079||Hypothetical protein (NCBI ptt file)||86, 272|
|CAC2133||CAC2133||Uncharacterized conserved protein, YLLB B.subtilis family (NCBI ptt file)||11, 53|
|CAC2291||CAC2291||Hypothetical protein (NCBI ptt file)||86, 102|
|CAC2331||CAC2331||DTDP-4-dehydrorhamnose 3,5-epimerase (NCBI ptt file)||86, 211|
|CAC2336||CAC2336||TPR repeats containing protein (NCBI ptt file)||53, 294|
|CAC2469||CAC2469||Lactoylglutathione lyase (fragment) (NCBI ptt file)||78, 86|
|CAC2494||CAC2494||Predicted membrane protein (NCBI ptt file)||53, 86|
|CAC2504||CAC2504||Hypothetical protein (NCBI ptt file)||4, 53|
|CAC2690||CAC2690||Transcriptional regulator, LysR family (NCBI ptt file)||86, 137|
|CAC2706||CAC2706||Uncharacterized conserved membrane protein, DedA family (NCBI ptt file)||53, 273|
|CAC2715||CAC2715||Hypothetical protein (NCBI ptt file)||26, 53|
|CAC2727||CAC2727||Predicted PHP family hydrolase (NCBI ptt file)||53, 278|
|CAC2826||CAC2826||Intracellular protease/amidase related enzyme (ThiJ family) (NCBI ptt file)||86, 273|
|CAC3033||CAC3033||Uncharacterized protein containing conserved domain, related to YABE B.subtilis C-terminal domain (NCBI ptt file)||86, 233|
|CAC3213||CAC3213||Possible stage V sporulation protein B, predicted transporter (NCBI ptt file)||86, 118|
|CAC3215||prsA||Parvulin-like peptidyl-prolyl isomerase, PRSA B.subtilis ortholog (NCBI ptt file)||53, 59|
|CAC3226||CAC3226||Predicted membrane protein (NCBI ptt file)||86, 341|
|CAC3280||CAC3280||Possible surface protein, responsible for cell interaction; contains cell adhesion domain and ChW-repeats (NCBI ptt file)||4, 86|
|CAC3286||CAC3286||Chey-like receiver domain containing protein, YCBB B.subtilis ortholog (NCBI ptt file)||86, 328|
|CAC3313||CAC3313||Acyl carrier protein, ACP (NCBI ptt file)||86, 341|
|CAC3359||CAC3359||Nitroreductase family protein fused to ferredoxin domain (NCBI ptt file)||86, 266|
|CAC3395||CAC3395||Predicted membrane protein (NCBI ptt file)||57, 86|
|CAC3535||CAC3535||Type II restriction enzyme, methylase subunit (NCBI ptt file)||53, 222|
|CAC3602||CAC3602||HD superfamily hydrolase (NCBI ptt file)||86, 109|
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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