Phatr_bicluster_0009 Residual: 0.43
Phaeodactylum tricornutum

Module Page Help

What is a module?

Regulatory units (modules) in the Network Portal are based on the network inference algorithm used. For the current version, modules are based on cMonkey modules and Inferelator regulatory influences on these modules. More specifically, module refers to set of genes that are conditionally co-regulated under subset of the conditions. Identification of modules integrates co-expression, de-novo motif identification, and other functional associations such as operon information and protein-protein interactions.

Expression Profiles

Expression profiles is a plot of the expression ratios (log10) of the module's genes, over all subset of the conditions included in the module. The X-axis represent conditions and the Y-axis represents log10 expression ratios. Each gene is plotted as line plot with different colors. Colored legend for the lines are presented under the plot. This plot is dynamic. Clicking on the gene names in the legend will show/hide the plot for that particular gene. A tooltip will show expression ratio information if you mouseover the lines in the plot.

Motif Locations

Location of the Identified motifs for the module in the upstream regions of the member genes are shown under the expression profiles plot. This plot shows the diagram of the upstream positions of the motifs, colored red and green for motifs #1, and 2, respectively. Intensity of the color is proportional to the significance of the occurence of that motif at a given location. Motifs on the forward and reverse strand are represented over and under the line respectively.

Regulators

For each module, single or AND logic connected regulatory influences are listed under the regulators tab. These regulatory influences are identified by Inferelator. Table shows name of the regulator and its type. tf: Transcription factor, ef: Environmental factor and combiner:Combinatorial influence of a tf or an ef through logic gate. Tabel is sortable by clicking on the arrows next to column headers.

Motifs

Transcription factor binding motifs help to elucidate regulatory mechanism. cMonkey integrates powerful de novo motif detection to identify conditionally co-regulated sets of genes. De novo predicted motifs for each module are listed in the module page as motif logo images along with associated prediction statistics (e-values). The main module page also shows the location of these motifs within the upstream sequences of the module member genes.

Summary

Title Residual Model version Organism
Phatr_bicluster_0009 0.43 Phaeodactylum tricornutum

Module Plots

Motifs

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Members

Displaying 1 - 69 of 69
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PHATRDRAFT_14792 phosphoglycerate kinase (pgk)

PHATRDRAFT_14792 - phosphoglycerate kinase (pgk)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14792
PHATRDRAFT_16069 mercuric reductase (PRK06370)

PHATRDRAFT_16069 - mercuric reductase (PRK06370)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16069
PHATRDRAFT_16147 mitochondrial cytochrome c oxidase assembly factor cox11p (CtaG_Cox11 superfamily)

PHATRDRAFT_16147 - mitochondrial cytochrome c oxidase assembly factor cox11p (CtaG_Cox11 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16147
PHATRDRAFT_1971 (Pat_SDP1-like)

PHATRDRAFT_1971 - (Pat_SDP1-like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_1971
PHATRDRAFT_23709 probable succinate-fumarate transporter (Mito_carr)

PHATRDRAFT_23709 - probable succinate-fumarate transporter (Mito_carr)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_23709
PHATRDRAFT_31442 peroxisomal membrane protein22kda (Mpv17_PMP22)

PHATRDRAFT_31442 - peroxisomal membrane protein22kda (Mpv17_PMP22)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31442
PHATRDRAFT_31875

PHATRDRAFT_31875 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31875
PHATRDRAFT_33128

PHATRDRAFT_33128 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33128
PHATRDRAFT_33131 (Nucleotidyl_cyc_III superfamily)

PHATRDRAFT_33131 - (Nucleotidyl_cyc_III superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33131
PHATRDRAFT_33478

PHATRDRAFT_33478 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33478
PHATRDRAFT_33616

PHATRDRAFT_33616 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33616
PHATRDRAFT_3559 adenosine deaminase (metallo-dependent_hydrolases superfamily)

PHATRDRAFT_3559 - adenosine deaminase (metallo-dependent_hydrolases superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_3559
PHATRDRAFT_37425

PHATRDRAFT_37425 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37425
PHATRDRAFT_37845

PHATRDRAFT_37845 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37845
PHATRDRAFT_37952 twin-arginine translocation pathway signal (FmdA_AmdA superfamily)

PHATRDRAFT_37952 - twin-arginine translocation pathway signal (FmdA_AmdA superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37952
PHATRDRAFT_38531

PHATRDRAFT_38531 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38531
PHATRDRAFT_39728 sterol desaturase family protein

PHATRDRAFT_39728 - sterol desaturase family protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39728
PHATRDRAFT_40404

PHATRDRAFT_40404 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40404
PHATRDRAFT_4073 l-asparaginase (L-asparaginase_I)

PHATRDRAFT_4073 - l-asparaginase (L-asparaginase_I)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_4073
PHATRDRAFT_41109 transcription factor of the tale pbx family

PHATRDRAFT_41109 - transcription factor of the tale pbx family

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41109
PHATRDRAFT_41294 copia protein (gag-int-pol protein)

PHATRDRAFT_41294 - copia protein (gag-int-pol protein)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41294
PHATRDRAFT_41545 (DUF3067 superfamily)

PHATRDRAFT_41545 - (DUF3067 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41545
PHATRDRAFT_41559

PHATRDRAFT_41559 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41559
PHATRDRAFT_43975

PHATRDRAFT_43975 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43975
PHATRDRAFT_44099 hsf-type dna-binding domain containing protein (HSF_DNA-bind)

PHATRDRAFT_44099 - hsf-type dna-binding domain containing protein (HSF_DNA-bind)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44099
PHATRDRAFT_44100

PHATRDRAFT_44100 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44100
PHATRDRAFT_44149 sodium hydrogen exchanger (Na_H_Exchanger)

PHATRDRAFT_44149 - sodium hydrogen exchanger (Na_H_Exchanger)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44149
PHATRDRAFT_45390 family protein

PHATRDRAFT_45390 - family protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45390
PHATRDRAFT_45463 (Adenylation_DNA_ligase_like superfamily)

PHATRDRAFT_45463 - (Adenylation_DNA_ligase_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45463
PHATRDRAFT_46275 probable hydrocarbon oxygenase (Membrane-FADS-like superfamily)

PHATRDRAFT_46275 - probable hydrocarbon oxygenase (Membrane-FADS-like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46275
PHATRDRAFT_47246

PHATRDRAFT_47246 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47246
PHATRDRAFT_47350 (HMGB-UBF_HMG-box)

PHATRDRAFT_47350 - (HMGB-UBF_HMG-box)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47350
PHATRDRAFT_47382 at4g18950 f13c5_120 (PKc_like superfamily)

PHATRDRAFT_47382 - at4g18950 f13c5_120 (PKc_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47382
PHATRDRAFT_47484

PHATRDRAFT_47484 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47484
PHATRDRAFT_47529 (UDG_MUG_like)

PHATRDRAFT_47529 - (UDG_MUG_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47529
PHATRDRAFT_47579

PHATRDRAFT_47579 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47579
PHATRDRAFT_47694 plant late embryo abundantrelated family member (lea-1)

PHATRDRAFT_47694 - plant late embryo abundantrelated family member (lea-1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47694
PHATRDRAFT_47778 high-mobility group 20a (HMG-box)

PHATRDRAFT_47778 - high-mobility group 20a (HMG-box)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47778
PHATRDRAFT_48032 extradiol ring-cleavageclass iiisubunit b (45_DOPA_Dioxygenase)

PHATRDRAFT_48032 - extradiol ring-cleavageclass iiisubunit b (45_DOPA_Dioxygenase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48032
PHATRDRAFT_48197

PHATRDRAFT_48197 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48197
PHATRDRAFT_48237 group 3 late embryogenesis abundant protein

PHATRDRAFT_48237 - group 3 late embryogenesis abundant protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48237
PHATRDRAFT_48435 (LON)

PHATRDRAFT_48435 - (LON)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48435
PHATRDRAFT_48518 zinc iron permease (Zip)

PHATRDRAFT_48518 - zinc iron permease (Zip)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48518
PHATRDRAFT_48553 elicitin protein ram6 (Atrophin-1)

PHATRDRAFT_48553 - elicitin protein ram6 (Atrophin-1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48553
PHATRDRAFT_48596

PHATRDRAFT_48596 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48596
PHATRDRAFT_48607 viral a-type inclusion protein repeat containing protein

PHATRDRAFT_48607 - viral a-type inclusion protein repeat containing protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48607
PHATRDRAFT_48753 ipt tig domain containing protein

PHATRDRAFT_48753 - ipt tig domain containing protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48753
PHATRDRAFT_48903 loc495188 protein

PHATRDRAFT_48903 - loc495188 protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48903
PHATRDRAFT_48970 possible phosphodiesterase alkaline phosphataseof possible plant or bacterial origin (MPP_PhoD)

PHATRDRAFT_48970 - possible phosphodiesterase alkaline phosphataseof possible plant or bacterial origin (MPP_PhoD)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48970
PHATRDRAFT_48973

PHATRDRAFT_48973 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48973
PHATRDRAFT_49303

PHATRDRAFT_49303 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49303
PHATRDRAFT_49510

PHATRDRAFT_49510 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49510
PHATRDRAFT_49529 mgc82743 protein (WD40 superfamily)

PHATRDRAFT_49529 - mgc82743 protein (WD40 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49529
PHATRDRAFT_49589 (ARM)

PHATRDRAFT_49589 - (ARM)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49589
PHATRDRAFT_49624 (PD-C2-AF1)

PHATRDRAFT_49624 - (PD-C2-AF1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49624
PHATRDRAFT_49741 trna rrna methyltransferase (SpoU)

PHATRDRAFT_49741 - trna rrna methyltransferase (SpoU)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49741
PHATRDRAFT_50060

PHATRDRAFT_50060 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50060
PHATRDRAFT_50061 pentatricopeptiderepeat-containing protein (PPR_2)

PHATRDRAFT_50061 - pentatricopeptiderepeat-containing protein (PPR_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50061
PHATRDRAFT_50079

PHATRDRAFT_50079 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50079
PHATRDRAFT_50160 (ANK)

PHATRDRAFT_50160 - (ANK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50160
PHATRDRAFT_50170

PHATRDRAFT_50170 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50170
PHATRDRAFT_50226 u2 snrnp component prp10

PHATRDRAFT_50226 - u2 snrnp component prp10

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50226
PHATRDRAFT_50268

PHATRDRAFT_50268 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50268
PHATRDRAFT_50292 (GLECT superfamily)

PHATRDRAFT_50292 - (GLECT superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50292
PHATRDRAFT_50398

PHATRDRAFT_50398 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50398
PHATRDRAFT_50419 (CRAL_TRIO_2)

PHATRDRAFT_50419 - (CRAL_TRIO_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50419
PHATRDRAFT_7778 tkl family protein kinase (PKc_like superfamily)

PHATRDRAFT_7778 - tkl family protein kinase (PKc_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_7778
PHATRDRAFT_7910 spermine synthase (AdoMet_MTases superfamily)

PHATRDRAFT_7910 - spermine synthase (AdoMet_MTases superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_7910
PHATRDRAFT_981 minichromosome maintenance protein domain containing 1 (MCM)

PHATRDRAFT_981 - minichromosome maintenance protein domain containing 1 (MCM)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_981

GO Enrichment

GO ID Go Term p-value q-value Cluster
GO:0006310 DNA recombination 0.00196672 1 Phatr_bicluster_0009
GO:0006260 DNA replication 0.0135289 1 Phatr_bicluster_0009
GO:0006355 regulation of transcription, DNA-dependent 0.0156555 1 Phatr_bicluster_0009
GO:0009168 purine ribonucleoside monophosphate biosynthesis 0.0206078 1 Phatr_bicluster_0009
GO:0006270 DNA replication initiation 0.0408058 1 Phatr_bicluster_0009
GO:0006636 fatty acid desaturation 0.0671124 1 Phatr_bicluster_0009
GO:0030001 metal ion transport 0.105272 1 Phatr_bicluster_0009
GO:0006725 aromatic compound metabolism 0.129871 1 Phatr_bicluster_0009
GO:0006979 response to oxidative stress 0.153817 1 Phatr_bicluster_0009
GO:0006520 amino acid metabolism 0.153817 1 Phatr_bicluster_0009

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