Environment and Gene Regulatory Influence Network (EGRIN) model for C. difficile 630

The Environment and Gene Regulatory Influence Network (EGRIN) model of C. difficile 630 was inferred using cMonkey2 and a compendium of 136 transcriptomes (retrieved from the Gene Expression Omnibus repository) with 4,070 sequence features including 35 rRNAs and 90 tRNAs . The C. difficile EGRIN model groups genes in subsets (406 modules in total), that are co-regulated in specific environments, and also identifies the associated, putative cis-acting gene regulatory elements (GREs), which represent potential TF binding locations. Transcriptome compendium included conditions: response to iron limitation, response to oxygen, in vivo vs in vitro growth, short term infection (0, 30, 60, 120 mins), response to commensals and host diet, transition from exponential to stationary phase, fur KO, codY KO, sporulation TF (and sigma factors) KOs.

Explore Regulatory Modules

Displaying 151 - 160 of 406

Candidate transcriptional regulators for each module were determined with a linear regression based approach (Inferelator) and by evaluating the statistical significance of the overlap (Hypergeometric) between modules and putative TF and alternative sigma factor regulons (CcpA, CodY, Fur, PrdR, SigB, SigD, SigE, SigF, SigG, SigH, SigK, Spo0A) compiled from available literature.

* Given that translation start was used to define the 3' end of putative promoters, some cis-regulatory motifs are likely to be ribosome binding sites (i.e., Shine-Dalgarno sequence). RBS is typically a six nucleotide sequence 5'-GGAGGA-3'.

Filter by Module number e.g "401"
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Title Gene Count Motif 1 e-value Motif 2 e-value Residual Expression TF Influences
Module_101 12
  • CD630_03480 - Type: Gene
    Product:Fragment of conserved hypothetical protein (Part1) | Pathway: | COG: Secondary metabolites biosynthesis, transport and catabolism, Secondary metabolites biosynthesis, transport and catabolism
  • CD630_05071 - Type: Gene
    Product:Fragment of Tet(M) leader peptide Tn5397,CTn3-orf12 (C-terminal region) | Pathway: | COG:
  • CD630_13880 - Type: Gene
    Product:Fragment of trancriptional regulator (Part 2) | Pathway: | COG: Transcription
  • CD630_20052 - Type: Gene
    Product:Fragment of conserved hypothetical protein(Central region) | Pathway: | COG: Function unknown
  • CD630_08580 - Type: Gene
    Product:Fragment of transcriptional regulator,sigma-54-dependent (Part 1), PRD domain | Pathway: | COG: Signal transduction mechanisms, Signal transduction mechanisms
  • CD630_33580 - Type: Gene
    Product:Fragment of C-terminal transcriptional regulator,AsnC/Lrp family | Pathway: | COG: Transcription
  • CD630_24591 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_06780 - Type: Gene
    Product:Fragment of conserved hypothetical protein(C-terminal region) | Pathway: | COG:
  • CD630_36740 - rsmG Type: Gene
    Product:Fragment of 7-methylguanosine methyltransferasespecific for the 16S rRNA (Part 2) | Pathway: | COG: Cell wall/membrane/envelope biogenesis, Cell wall/membrane/envelope biogenesis
  • CD630_22210 - Type: Gene
    Product:Fragment of putative extrachromosomal protein(C-terminal region) | Pathway: | COG: Function unknown
NA NA 0.47 Inferelator: 0
Hypergeometric: 0

TF Influences from Inferelator

No TF influences from Inferelator

TF Influences from Hypergeometric Test

No TF Influences from the hypergeometric test
Module_136 25
  • CD630_13660 - Type: Gene
    Product:Putative phage tail protein | Pathway: | COG: Function unknown
  • CD630_12440 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_13620 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_13640 - Type: Gene
    Product:Putative phage XkdM-like protein | Pathway: | COG: Function unknown
  • CD630_13700 - Type: Gene
    Product:Putative phage XkdS-like protein | Pathway: | COG: Function unknown
  • CD630_12420 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_13720 - Type: Gene
    Product:Putative phage XkdT-like protein | Pathway: | COG: Function unknown
  • CD630_13680 - Type: Gene
    Product:Putative phage cell wall XkdQ-like hydrolase | Pathway: | COG: Cell wall/membrane/envelope biogenesis
  • CD630_14150 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_13760 - Type: Gene
    Product:Putative phage protein | Pathway: | COG:
  • CD630_13740 - Type: Gene
    Product:Putative beta-lactamase-inhibitor protein II | Pathway: | COG: Cell cycle control, cell division, chromosome partitioning, Cytoskeleton
  • CD630_25710 - Type: Gene
    Product:Two-component response regulator | Pathway: | COG: Signal transduction mechanisms
  • CD630_30410 - pepI Type: Gene
    Product:Proline iminopeptidase (Proline aminopeptidase)(PIP), peptidase S33 family | Pathway: | COG: Amino acid transport and metabolism
  • CD630_14170 - Type: Gene
    Product:Putative ATP-binding protein | Pathway: | COG: Amino acid transport and metabolism
  • CD630_13670 - Type: Gene
    Product:Putative phage XkdP-like protein | Pathway: | COG: Function unknown
  • CD630_13651 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_13650 - Type: Gene
    Product:Putative phage XkdN-like protein | Pathway: | COG: Function unknown
  • CD630_13630 - Type: Gene
    Product:Putative phage XkdK-like protein | Pathway: | COG: Function unknown
  • CD630_12430 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_13710 - Type: Gene
    Product:Putative baseplate assembly predicted J-like | Pathway: | COG: Function unknown
  • CD630_13730 - Type: Gene
    Product:Putative phage tail fiber protein | Pathway: | COG: Function unknown
  • CD630_13690 - Type: Gene
    Product:Putative phage protein | Pathway: | COG:
  • CD630_25700 - Type: Gene
    Product:Two-component sensor histidine kinase | Pathway: | COG: Signal transduction mechanisms
  • CD630_14140 - Type: Gene
    Product:Putative oxidoreductase, Fe-S subunit | Pathway: | COG: Function unknown
  • CD630_14160 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
0.000016 NA 0.48 Inferelator: 1
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_30540 - Type: Gene
    Product:Two-component response regulator | Pathway: | COG: Signal transduction mechanisms

TF Influences from Hypergeometric Test

No TF Influences from the hypergeometric test
Module_57 26
  • CD630_17640 - Type: Gene
    Product:Putative phenylalanyl-tRNA synthetase beta chain | Pathway: | COG: Function unknown
  • CD630_28050 - ruvB Type: Gene
    Product:Holliday junction ATP-dependent DNA helicaseRuvB | Pathway: | COG: Replication, recombination and repair
  • CD630_28070 - ruvC Type: Gene
    Product:Crossover junction endodeoxyribonuclease RuvC(Holliday junction nuclease RuvC) (Holliday junctionresolvase RuvC) | Pathway: | COG: Replication, recombination and repair
  • CD630_13310 - sip3 Type: Gene
    Product:Signal peptidase I, S26A family | Pathway: | COG: Intracellular trafficking, secretion, and vesicular transport
  • CD630_27870 - cwp84 Type: Gene
    Product:Cell surface protein | Pathway: | COG: Posttranslational modification, protein turnover, chaperones
  • CD630_13330 - Type: Gene
    Product:Putative phage tyrosine recombinase | Pathway: | COG: Replication, recombination and repair
  • CD630_13270 - pgsA Type: Gene
    Product:CDP-diacylglycerol--glycerol-3-phosphate3-phosphatidyltransferase | Pathway: | COG: Lipid transport and metabolism
  • CD630_25960 - Type: Gene
    Product:Putative pseudouridylate synthase, RluC/RluDfamily | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_35810 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_17630 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_22620 - Type: Gene
    Product:Transporter, Major Facilitator Superfamily (MFS) | Pathway: | COG: Amino acid transport and metabolism
  • CD630_06170 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_28060 - ruvA Type: Gene
    Product:Holliday junction ATP-dependent DNA helicaseRuvA | Pathway: | COG: Replication, recombination and repair
  • CD630_35830 - Type: Gene
    Product:Transcriptional regulator, MerR family | Pathway: | COG: Transcription
  • CD630_17650 - Type: Gene
    Product:Putative hydrolase, NUDIX family | Pathway: | COG: Replication, recombination and repair
  • CD630_27880 - Type: Gene
    Product:Putative membrane protein, GtrA family | Pathway: | COG: Function unknown
  • CD630_31640 - rnr Type: Gene
    Product:Ribonuclease R | Pathway: | COG: Transcription
  • CD630_13340 - purB Type: Gene
    Product:Adenylosuccinate lyase | Pathway: Purine metabolism | COG: Nucleotide transport and metabolism
  • CD630_19510 - Type: Gene
    Product:putative Acyl-CoA N-acyltransferase | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_13260 - rimO Type: Gene
    Product:Ribosomal protein S12 methylthiotransferase | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_29830 - Type: Gene
    Product:Putative Helix-Turn-Helix DNA-binding protein | Pathway: | COG: Transcription
  • CD630_13240 - ftsK Type: Gene
    Product:DNA FtsK/SpoIIIE translocase | Pathway: | COG: Cell cycle control, cell division, chromosome partitioning
  • CD630_13320 - uppP1 Type: Gene
    Product:Undecaprenyl-diphosphatase 1 (Undecaprenylpyrophosphate phosphatase 1) (Bacitracin resistance protein1) | Pathway: | COG: Defense mechanisms
  • CD630_25970 - lspA Type: Gene
    Product:Lipoprotein signal peptidase (Prolipoproteinsignal peptidase) (Signal peptidase II) (SPase II) | Pathway: Protein modification | COG: Cell wall/membrane/envelope biogenesis, Intracellular trafficking, secretion, and vesicular transport
  • CD630_35820 - Type: Gene
    Product:Putative pseudouridine synthase RsuA-like | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_21250 - Type: Gene
    Product:Putative acetyltransferase | Pathway: | COG: Function unknown
9e-17 0 0.48 Inferelator: 2
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_08870 - Type: Gene
    Product:Transcriptional regulator, GntR family | Pathway: | COG: Transcription
  2. CD630_20480 - Type: Gene
    Product:Transcriptional regulator, RpiR family | Pathway: | COG: Transcription

TF Influences from Hypergeometric Test

No TF Influences from the hypergeometric test
Module_90 4
  • CD630_22510 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_19930 - Type: Gene
    Product:Putative decarboxylase | Pathway: | COG: Function unknown
  • CD630_31080 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_31090 - Type: Gene
    Product:Putative pentose-5-phosphate 3-epimerase | Pathway: | COG: Carbohydrate transport and metabolism
NA NA 0.48 Inferelator: 2
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_20480 - Type: Gene
    Product:Transcriptional regulator, RpiR family | Pathway: | COG: Transcription
  2. CD630_30540 - Type: Gene
    Product:Two-component response regulator | Pathway: | COG: Signal transduction mechanisms

TF Influences from Hypergeometric Test

No TF Influences from the hypergeometric test
Module_44 21
  • CD630_16360 - terD Type: Gene
    Product:Tellurium resistance protein | Pathway: | COG: Signal transduction mechanisms
  • CD630_25900 - dapF Type: Gene
    Product:Diaminopimelate epimerase (DAP epimerase) | Pathway: Amino-acid biosynthesis | COG: Amino acid transport and metabolism
  • CD630_16370 - Type: Gene
    Product:Putative calcium-transporting ATPase | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_25780 - Type: Gene
    Product:Putative serine/threonine-protein kinase andphosphatase | Pathway: | COG: Signal transduction mechanisms
  • CD630_16350 - terD Type: Gene
    Product:Tellurium resistance protein | Pathway: | COG: Signal transduction mechanisms
  • CD630_25790 - Type: Gene
    Product:Putative phosphatase, 2C family | Pathway: | COG: Signal transduction mechanisms
  • CD630_25810 - rsmB Type: Gene
    Product:Ribosomal RNA small subunit methyltransferase B(rRNA (cytosine-C(5)-)-methyltransferase) | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_16400 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Carbohydrate transport and metabolism
  • CD630_25830 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_16410 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_25740 - thiN Type: Gene
    Product:Thiamine pyrophosphokinase (TPK) (Thiaminediphospho kinase) | Pathway: | COG: Coenzyme transport and metabolism
  • CD630_13580 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_16430 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_25770 - fabG Type: Gene
    Product:3-oxoacyl-[acyl-carrier-protein] reductase(3-ketoacyl- acyl carrier protein reductase) | Pathway: | COG: Function unknown
  • CD630_16380 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_16420 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_25860 - priA Type: Gene
    Product:Primosomal protein N' (ATP-dependent helicasepriA) (Replication factor Y) | Pathway: | COG: Replication, recombination and repair
  • CD630_16390 - Type: Gene
    Product:Putative tellurite associated resistance protein | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_16330 - Type: Gene
    Product:Putative serine protease | Pathway: | COG: Posttranslational modification, protein turnover, chaperones
  • CD630_13570 - Type: Gene
    Product:Putative peptidyl-prolyl isomerase | Pathway: | COG: Posttranslational modification, protein turnover, chaperones
  • CD630_25871 - rpoZ Type: Gene
    Product:DNA-directed RNA polymerase subunit omega (RNAPomega subunit) (Transcriptase subunit omega) (RNApolymerase omega subunit) | Pathway: | COG: Transcription
NA NA 0.48 Inferelator: 4
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_11770 - fapR Type: Gene
    Product:Transcriptional regulator, DeoR family (Fattyacid and phospholipid biosynthesis regulator) | Pathway: | COG: Transcription
  2. CD630_16920 - Type: Gene
    Product:Transcriptional regulator, ArsR family | Pathway: | COG: Transcription
  3. CD630_16930 - Type: Gene
    Product:Putative dinitrogenase iron-molybdenum cofactor | Pathway: | COG: Function unknown
  4. CD630_17820 - Type: Gene
    Product:Two-component response regulator | Pathway: | COG: Signal transduction mechanisms

TF Influences from Hypergeometric Test

No TF Influences from the hypergeometric test
Module_12 20
  • CD630_33220 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_31880 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_15640 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_19870 - cwp28 Type: Gene
    Product:Putative cell wall binding protein | Pathway: | COG: Function unknown
  • CD630_30050 - Type: Gene
    Product:Transcriptional regulator, IclR family | Pathway: | COG: Transcription
  • CD630_05110 - tndX Type: Gene
    Product:Recombinase site-specific resolvase familyTn5397, CTn3-Orf3 | Pathway: | COG: Replication, recombination and repair
  • CD630_33660 - Type: Gene
    Product:Putative exported protein | Pathway: | COG:
  • CD630_15670 - cotG Type: Gene
    Product:Putative spore-associated manganese catalase | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_32680 - pstS Type: Gene
    Product:ABC-type transport system, phosphateextracellular solute-binding protein | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_17400 - Type: Gene
    Product:Glycine/sarcosine/betaine reductase complex,protein B, alpha and beta subunits | Pathway: | COG: Function unknown
  • CD630_32480 - Type: Gene
    Product:Polysaccharide deacetylase | Pathway: | COG: Carbohydrate transport and metabolism
  • CD630_10290 - Type: Gene
    Product:Putative cell wall anchored protein | Pathway: | COG: Function unknown
  • CD630_01640 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG:
  • CD630_19890 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG:
  • CD630_33210 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_05270 - Type: Gene
    Product:Putative beta-lactamase-like hydrolase | Pathway: | COG: Function unknown
  • CD630_07410 - glpK1 Type: Gene
    Product:Glycerol kinase (GK) | Pathway: Polyol metabolism | COG: Energy production and conversion
  • CD630_12400 - vanZ Type: Gene
    Product:Teicoplanin resistance protein | Pathway: | COG: Defense mechanisms
  • CD630_32500 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_12590 - brnQ-1 Type: Gene
    Product:Branched chain amino acid transport systemcarrier protein | Pathway: | COG: Amino acid transport and metabolism
5.7e-17 NA 0.48 Inferelator: 4
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_10090 - Type: Gene
    Product:Transcriptional regulator, GntR family | Pathway: | COG: Transcription
  2. CD630_12390 - Type: Gene
    Product:Transcriptional regulator, beta-lactams repressorPhage-type | Pathway: | COG: Transcription
  3. CD630_19100 - eutV Type: Gene
    Product:Two-component response regulator, Ethanolaminespecific | Pathway: | COG: Signal transduction mechanisms
  4. CD630_31750 - cggR Type: Gene
    Product:Transcriptional regulator, SorC family | Pathway: | COG: Transcription

TF Influences from Hypergeometric Test

No TF Influences from the hypergeometric test
Module_356 31
  • CD630_36150 - Type: Gene
    Product:Transcriptional regulator, MerR family | Pathway: | COG: Transcription
  • CD630_32350 - ssb Type: Gene
    Product:Single-stranded DNA-binding protein | Pathway: | COG: Replication, recombination and repair
  • CD630_12440 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_06920 - Type: Gene
    Product:Putative metallo-hydrolase/oxidoreductase | Pathway: | COG: Function unknown
  • CD630_18880 - rsiU Type: Gene
    Product:Anti Sigma Factor, ECF family | Pathway: | COG: Function unknown
  • CD630_01640 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG:
  • CD630_29510 - Type: Gene
    Product:Putative phage protein | Pathway: | COG: Function unknown
  • CD630_10870 - zupT Type: Gene
    Product:Putative zinc/iron transporter, ZupT subfamiliy | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_12420 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_06710 - Type: Gene
    Product:Putative enzyme, glyoxalase family | Pathway: | COG: Amino acid transport and metabolism
  • CD630_20250 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_10850 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_20190 - Type: Gene
    Product:Transporter drug resistance, Major FacilitatorSuperfamily (MFS) | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_18900 - Type: Gene
    Product:ABC-type transport system, multidrug-familypermease | Pathway: | COG: Function unknown
  • CD630_10890 - rgbR Type: Gene
    Product:Two-component response regulator VirR-like | Pathway: | COG: Signal transduction mechanisms
  • CD630_20240 - Type: Gene
    Product:ABC-type transport system, multidrug-familyATP-binding protein | Pathway: | COG: Defense mechanisms
  • CD630_18840 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_36160 - Type: Gene
    Product:Na(+)/H(+) antiporter | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_33300 - Type: Gene
    Product:Transcriptional regulator, HTH-type Tn916-like,CTn6-Orf6 | Pathway: | COG: Transcription
  • CD630_12380 - Type: Gene
    Product:Putative phage protein | Pathway: | COG:
  • CD630_12450 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_19941 - Type: Gene
    Product:Transcriptional regulator, ArsR family | Pathway: | COG: Transcription
  • CD630_19940 - Type: Gene
    Product:Putative membrane protein, DUF1648 family | Pathway: | COG: Function unknown
  • CD630_12430 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_18890 - Type: Gene
    Product:ABC-type transport system, multidrug-familyATP-binding protein | Pathway: | COG: Defense mechanisms
  • CD630_10860 - Type: Gene
    Product:Putative peptidase, M20D family | Pathway: | COG: Amino acid transport and metabolism
  • CD630_18830 - Type: Gene
    Product:Transcriptional regulator, AraC family | Pathway: | COG: Transcription
  • CD630_18870 - csfU Type: Gene
    Product:Extra-Cytoplasmic Function sigma factors, ECFfamily | Pathway: | COG: Transcription
  • CD630_07490 - Type: Gene
    Product:Putative DNA helicase, UvrD/REP type | Pathway: | COG: Replication, recombination and repair
  • CD630_10880 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_20230 - Type: Gene
    Product:Transcriptional regulator, GntR family | Pathway: | COG: Transcription
6.4e-17 NA 0.48 Inferelator: 1
Hypergeometric: 1

TF Influences from Inferelator

  1. CD630_34990 - spoVT Type: Gene
    Product:Stage V sporulation protein T | Pathway: | COG: Transcription

TF Influences from Hypergeometric Test

  1. CD630_26430 - sigE Type: Gene
    Product:RNA polymerase sigma-E factor | Pathway: | COG: Transcription
Module_391 24
  • CD630_36051 - Type: Gene
    Product:Ferredoxin | Pathway: | COG: Energy production and conversion
  • CD630_13840 - Type: Gene
    Product:Putative lamB-like protein, UPF0271 family | Pathway: | COG: Amino acid transport and metabolism
  • CD630_13860 - Type: Gene
    Product:Putative allophanate hydrolase subunit 1 | Pathway: | COG: Amino acid transport and metabolism
  • CD630_36080 - Type: Gene
    Product:ABC-type transport system, ATP-binding protein | Pathway: | COG: Posttranslational modification, protein turnover, chaperones
  • CD630_10010 - Type: Gene
    Product:ABC-type transport system,nitrate/sulfonate/taurine ATP-binding protein | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_09980 - Type: Gene
    Product:Putative iron-sulfur protein | Pathway: | COG: Energy production and conversion
  • CD630_01340 - Type: Gene
    Product:Transcription antiterminator, PTS operonregulator | Pathway: | COG: Transcription
  • CD630_19810 - Type: Gene
    Product:Transcriptional regulator, hxlR family | Pathway: | COG: Transcription
  • CD630_06390 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_16750 - Type: Gene
    Product:Transcriptional regulator, hxlR family | Pathway: | COG: Transcription
  • CD630_02780 - Type: Gene
    Product:Transcriptional regulator, hxlR family | Pathway: | COG: Transcription
  • CD630_25060 - LinCd Type: Gene
    Product:Transporter, Major Facilitator Superfamily (MFS) | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_21070 - Type: Gene
    Product:Xanthine/uracil/thiamine/ascorbate permeasefamily protein | Pathway: | COG: Function unknown
  • CD630_36060 - Type: Gene
    Product:Putative hydrolase | Pathway: | COG: Function unknown
  • CD630_13870 - Type: Gene
    Product:Putative allophanate hydrolase subunit 2 | Pathway: | COG: Amino acid transport and metabolism
  • CD630_13850 - Type: Gene
    Product:Putative natural resistance-associated macrophageprotein | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_10000 - Type: Gene
    Product:ABC-type transport system,nitrate/sulfonate/taurine permease | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_09990 - Type: Gene
    Product:ABC-type transport system,nitrate/sulfonate/taurine extracellular solute-bindingprotein | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_24920 - Type: Gene
    Product:Two-component sensor histidine kinase,sporulation-associated spo0A | Pathway: | COG: Signal transduction mechanisms
  • CD630_02790 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_16740 - Type: Gene
    Product:Putative NADPH-dependent FMN reductase | Pathway: | COG: Function unknown
  • CD630_33560 - Type: Gene
    Product:Transcriptional regulator, hxlR family | Pathway: | COG: Transcription
  • CD630_36070 - Type: Gene
    Product:Putative iron-sulfur assembly protein | Pathway: | COG: Posttranslational modification, protein turnover, chaperones
  • CD630_25050 - Type: Gene
    Product:Transcriptional regulator, TetR family | Pathway: | COG: Transcription
0.00000061 0.0000024 0.48 Inferelator: 1
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_01710 - rex Type: Gene
    Product:Transcriptional regulator, Redox-sensingrepressor Rex | Pathway: | COG: Transcription

TF Influences from Hypergeometric Test

No TF Influences from the hypergeometric test
Module_345 18
  • CD630_29340 - Type: Gene
    Product:Putative phage protein | Pathway: | COG:
  • CD630_12690 - Type: Gene
    Product:Two-component response regulator | Pathway: | COG: Signal transduction mechanisms
  • CD630_15910 - kdpA Type: Gene
    Product:Potassium-translocating ATPase A chain | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_12700 - Type: Gene
    Product:Two-component sensor histidine kinase | Pathway: | COG: Signal transduction mechanisms
  • CD630_15930 - kdpC Type: Gene
    Product:Potassium-transporting ATPase C chain | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_12740 - topA Type: Gene
    Product:DNA topoisomerase I | Pathway: | COG: Replication, recombination and repair
  • CD630_12720 - Type: Gene
    Product:Putative magnesium chelatase | Pathway: | COG: Posttranslational modification, protein turnover, chaperones
  • CD630_36320 - Type: Gene
    Product:Putative isochorismatase (2,3 dihydro-2,3dihydroxybenzoate synthase) | Pathway: | COG: Secondary metabolites biosynthesis, transport and catabolism
  • CD630_12760 - Type: Gene
    Product:Putative replication-associated recombinationprotein A RarA | Pathway: | COG: Replication, recombination and repair
  • CD630_29330 - Type: Gene
    Product:Hypothetical protein | Pathway: | COG:
  • CD630_29290 - Type: Gene
    Product:Putative phage protein | Pathway: | COG: Function unknown
  • CD630_12750 - codY Type: Gene
    Product:Transcriptional regulator, GTP-sensingpleiotropic repressor | Pathway: | COG: Transcription
  • CD630_29320 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_36330 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_29300 - Type: Gene
    Product:Putative phage anti-repressor protein | Pathway: | COG: Transcription
  • CD630_12670 - Type: Gene
    Product:ABC-type transport system, multidrug-familypermease | Pathway: | COG: Function unknown
  • CD630_12780 - iscR Type: Gene
    Product:Transcriptional regulator, Rrf2 family | Pathway: | COG: Transcription
  • CD630_29310 - Type: Gene
    Product:Putative phage endodeoxyribonuclease RusA-like | Pathway: | COG: Replication, recombination and repair
NA NA 0.48 Inferelator: 1
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_22140 - SinR Type: Gene
    Product:Transcriptional regulator, HTH-type | Pathway: | COG: Transcription

TF Influences from Hypergeometric Test

No TF Influences from the hypergeometric test
Module_305 18
  • CD630_04160 - Type: Gene
    Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf10 | Pathway: | COG: Function unknown
  • CD630_04080 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_04081 - Type: Gene
    Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf2 | Pathway: | COG: Function unknown
  • CD630_04170 - Type: Gene
    Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf11 | Pathway: | COG: Function unknown
  • CD630_04190 - Type: Gene
    Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf13 | Pathway: | COG: Function unknown
  • CD630_04150 - Type: Gene
    Product:Putative membrane protein Tn1549-like, CTn2-Orf9 | Pathway: | COG: Function unknown
  • CD630_04130 - Type: Gene
    Product:Putative single-strand DNA-binding proteinTn1549-like, CTn2-Orf7 | Pathway: | COG: Function unknown
  • CD630_04180 - Type: Gene
    Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf12 | Pathway: | COG: Intracellular trafficking, secretion, and vesicular transport
  • CD630_04060 - Type: Gene
    Product:Putative tRNA (Uracil-5-)-methyltransferase | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_04090 - Type: Gene
    Product:Putative replication initiation proteinTn1549-like, CTn2-Orf2 | Pathway: | COG: Replication, recombination and repair
  • CD630_04140 - Type: Gene
    Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf8 | Pathway: | COG: Function unknown
  • CD630_04110 - Type: Gene
    Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf4 | Pathway: | COG: Function unknown
  • CD630_04100 - Type: Gene
    Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf3 | Pathway: | COG: Replication, recombination and repair
  • CD630_04121 - Type: Gene
    Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf6 | Pathway: | COG:
  • CD630_04120 - Type: Gene
    Product:Putative conjugative transfer proteinTn1549-like, CTn2-Orf5 | Pathway: | COG: Intracellular trafficking, secretion, and vesicular transport
  • CD630_04191 - Type: Gene
    Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf14 | Pathway: | COG: Function unknown
  • CD630_04200 - Type: Gene
    Product:Putative cell surface protein Tn1549-like,CTn2-Orf15 | Pathway: | COG: Function unknown
  • CD630_04210 - Type: Gene
    Product:DNA topoisomerase protein, type IA, Tn1549-like,CTn2-Orf16 | Pathway: | COG: Replication, recombination and repair
NA NA 0.48 Inferelator: 2
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_01710 - rex Type: Gene
    Product:Transcriptional regulator, Redox-sensingrepressor Rex | Pathway: | COG: Transcription
  2. CD630_02760 - Type: Gene
    Product:Transcriptional regulator, AraC family | Pathway: | COG: Transcription

TF Influences from Hypergeometric Test

No TF Influences from the hypergeometric test