Organism : Clostridium acetobutylicum | Module List :
Regulation information for CAC0038(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 CAC0038
|Gene||Common Name||Description||Module membership|
|CAC0038||CAC0038||Hypothetical protein (NCBI ptt file)||44, 258|
|CAC0039||CAC0039||DNA segregation ATPase FtsK/SpoIIIE family protein, contains FHA domain (NCBI ptt file)||258, 333|
|CAC0070||CAC0070||Hypothetical protein (NCBI ptt file)||44, 78|
|CAC0188||nagA||N-acetylglucosamine-6-phosphate deacetylase (gene nagA) (NCBI ptt file)||44, 366|
|CAC0223||CAC0223||Predicted N6-adenine-specific DNA methylase (NCBI ptt file)||65, 258|
|CAC0250||CAC0250||Methyl-accepting chemotaxis protein (NCBI ptt file)||207, 258|
|CAC0343||CAC0343||Hypothetical protein, CF-23 family (NCBI ptt file)||190, 258|
|CAC0355||CAC0355||Putative polygalacturonase (pectinase) (NCBI ptt file)||100, 258|
|CAC0399||CAC0399||Hypothetical protein, CF-24 family (NCBI ptt file)||258, 264|
|CAC0410||CAC0410||Uncharacterized small conserved protein, homolog of YUKE/YFJA (NCBI ptt file)||258, 264|
|CAC0441||CAC0441||Uncharacterized conserved membrane protein of SANA family (NCBI ptt file)||14, 44|
|CAC0477||CAC0477||AP superfamily (NCBI ptt file)||247, 258|
|CAC0485||CAC0485||TRNA-processing ribonuclease BN (NCBI ptt file)||137, 258|
|CAC0509||CAC0509||PHP family protein (NCBI ptt file)||44, 258|
|CAC0568||asd||Aspartate semialdehyde dehydrogenase (gene asd) (NCBI ptt file)||26, 258|
|CAC0764||CAC0764||NADPH-dependent glutamate synthase beta chain (NCBI ptt file)||44, 91|
|CAC0864||CAC0864||Histidine kinase-like ATPase (NCBI ptt file)||65, 258|
|CAC0946||CAC0946||ComE-like protein, Metallo beta-lactamase superfamily hydrolase, secreted (NCBI ptt file)||44, 222|
|CAC0991||CAC0991||Putative intracellular protease (NCBI ptt file)||254, 258|
|CAC1256||CAC1256||Ribonucleases G/E family protein (NCBI ptt file)||84, 258|
|CAC1552||CAC1552||Response regulator (CheY-like receiver domain and HTH DNA-binding domain) (NCBI ptt file)||44, 366|
|CAC1637||CAC1637||Hypothetical protein, CF-12 family (NCBI ptt file)||44, 349|
|CAC1870||CAC1870||Hypothetical protein (NCBI ptt file)||44, 342|
|CAC1951||CAC1951||Site-specific recombinases, DNA invertase Pin homolog (NCBI ptt file)||44, 332|
|CAC1954||CAC1954||Hypothetical protein (NCBI ptt file)||22, 258|
|CAC2032||CAC2032||Hypothetical protein (NCBI ptt file)||3, 258|
|CAC2039||CAC2039||Hypothetical protein, CF-5 family (NCBI ptt file)||44, 190|
|CAC2168||CAC2168||Uncharacterized conserved protein (NCBI ptt file)||258, 345|
|CAC2434||CAC2434||Membrane associatehistidine kinase with HAMP domain (NCBI ptt file)||44, 312|
|CAC2436||CAC2436||Uncharacterized conserved membrane protein (NCBI ptt file)||44, 271|
|CAC2495||CAC2495||Predicted transcriptional regulator (NCBI ptt file)||258, 326|
|CAC2547||CAC2547||Possible membrane-associated methyl-accepting chemotaxis protein fused to HAMP domain (NCBI ptt file)||145, 258|
|CAC2550||CAC2550||Hypothetical protein (NCBI ptt file)||3, 258|
|CAC2811||CAC2811||Hypothetical protein, CF-17 family (NCBI ptt file)||123, 258|
|CAC2823||CAC2823||Hypothetical protein (NCBI ptt file)||258, 341|
|CAC2939||CAC2939||Response regulator (CheY-like receiver domain and HTH-type DNA-binding domain) (NCBI ptt file)||258, 351|
|CAC3003||thyA||Thymidylate synthase (NCBI ptt file)||100, 258|
|CAC3004||folA||Dihydrofolate reductase (NCBI ptt file)||255, 258|
|CAC3012||CAC3012||ATPase component of ABC transporter, with duplicated ATPase domains (NCBI ptt file)||44, 84|
|CAC3194||murD||UDP-N-acetylmuramoylalanine D-glutamate ligase (NCBI ptt file)||44, 142|
|CAC3220||CAC3220||Response regulator (CheY-like receiver domain and HTH-type DNA-binding domain) (NCBI ptt file)||44, 174|
|CAC3277||nrdA||Ribonucleotide reductase alpha subunit (NCBI ptt file)||244, 258|
|CAC3570||accC||Biotin carboxylase (NCBI ptt file)||44, 225|
|CAC3572||accB||Biotin carboxyl carrier protein of acetyl-CoA carboxylase (NCBI ptt file)||44, 91|
|CAC3703||CAC3703||Hypothetical protein (NCBI ptt file)||44, 349|
|CAC3704||CAC3704||Hypothetical protein, CF-7 family (NCBI ptt file)||44, 356|
|CAC3705||CAC3705||Hypothetical protein, CF-37 family(almost identical) (NCBI ptt file)||44, 349|
|CAC3706||CAC3706||Hypothetical protein, CF-12 family (NCBI ptt file)||44, 349|
|CAC3707||CAC3707||Uncharacterized protein, homolog of Bacillus firmus (gi:2654481) (NCBI ptt file)||44, 349|
|CAC3708||CAC3708||Hypothetical protein (NCBI ptt file)||36, 44|
|CAC3709||CAC3709||DNA segregation ATPase, FtsK/SpoIIIE family, YUKA B.subtilis ortholog (NCBI ptt file)||36, 44|
|CAC3710||CAC3710||Uncharacterized protein, YUKC B.subtilis homolog (NCBI ptt file)||36, 44|
|CAC3711||CAC3711||Hypothetical protein (NCBI ptt file)||36, 44|
|CAC3712||CAC3712||Hypothetical protein (NCBI ptt file)||44, 356|
|CAC3713||CAC3713||Uncharacterized conserved protein, yukE/yfjA B.subtilis family (NCBI ptt file)||44, 349|
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.
- 2. Source gene
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