Phatr_bicluster_0021 Residual: 0.40
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.
Title Residual Model version Organism
Phatr_bicluster_0021 0.40 Phaeodactylum tricornutum
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Displaying 1 - 53 of 53
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PHATRDRAFT_14355 rhc1a (ring-h2 finger c1a) protein binding zinc ion binding

PHATRDRAFT_14355 - rhc1a (ring-h2 finger c1a) protein binding zinc ion binding

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14355
PHATRDRAFT_15224 subfamilymember 7 (DnaJ)

PHATRDRAFT_15224 - subfamilymember 7 (DnaJ)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15224
PHATRDRAFT_15442 protein phosphatasemagnesiumbetaisoform cra_a (PP2Cc)

PHATRDRAFT_15442 - protein phosphatasemagnesiumbetaisoform cra_a (PP2Cc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15442
PHATRDRAFT_15948 novel proteinvertebrate nucleoside phosphorylase (PRK08202)

PHATRDRAFT_15948 - novel proteinvertebrate nucleoside phosphorylase (PRK08202)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15948
PHATRDRAFT_20716 rna binding motif protein 8 (RRM_RBM8)

PHATRDRAFT_20716 - rna binding motif protein 8 (RRM_RBM8)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_20716
PHATRDRAFT_22629 (ABC_ATPase superfamily)

PHATRDRAFT_22629 - (ABC_ATPase superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_22629
PHATRDRAFT_32906

PHATRDRAFT_32906 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32906
PHATRDRAFT_33110

PHATRDRAFT_33110 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33110
PHATRDRAFT_34576 exopolysaccharide biosynthesis protein (PS_pyruv_trans superfamily)

PHATRDRAFT_34576 - exopolysaccharide biosynthesis protein (PS_pyruv_trans superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34576
PHATRDRAFT_34944 copia protein (gag-int-pol protein)

PHATRDRAFT_34944 - copia protein (gag-int-pol protein)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34944
PHATRDRAFT_35176

PHATRDRAFT_35176 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35176
PHATRDRAFT_35498

PHATRDRAFT_35498 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35498
PHATRDRAFT_37751 (TTL superfamily)

PHATRDRAFT_37751 - (TTL superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37751
PHATRDRAFT_38075 copia protein (gag-int-pol protein)

PHATRDRAFT_38075 - copia protein (gag-int-pol protein)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38075
PHATRDRAFT_38389

PHATRDRAFT_38389 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38389
PHATRDRAFT_38708

PHATRDRAFT_38708 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38708
PHATRDRAFT_39407

PHATRDRAFT_39407 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39407
PHATRDRAFT_39425

PHATRDRAFT_39425 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39425
PHATRDRAFT_39573 (Herpes_BLLF1)

PHATRDRAFT_39573 - (Herpes_BLLF1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39573
PHATRDRAFT_39741

PHATRDRAFT_39741 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39741
PHATRDRAFT_39943

PHATRDRAFT_39943 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39943
PHATRDRAFT_40078

PHATRDRAFT_40078 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40078
PHATRDRAFT_40278 (DUF285)

PHATRDRAFT_40278 - (DUF285)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40278
PHATRDRAFT_40592

PHATRDRAFT_40592 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40592
PHATRDRAFT_40634 membrane-associated lipoprotein precurser (DUF285)

PHATRDRAFT_40634 - membrane-associated lipoprotein precurser (DUF285)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40634
PHATRDRAFT_43688 methyltransferase type 11 (Methyltransf_31)

PHATRDRAFT_43688 - methyltransferase type 11 (Methyltransf_31)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43688
PHATRDRAFT_43808 (HA)

PHATRDRAFT_43808 - (HA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43808
PHATRDRAFT_44026 dna repair system specific for alkylated dna (2OG-FeII_Oxy_2 superfamily)

PHATRDRAFT_44026 - dna repair system specific for alkylated dna (2OG-FeII_Oxy_2 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44026
PHATRDRAFT_44221 (PPR_2)

PHATRDRAFT_44221 - (PPR_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44221
PHATRDRAFT_44774 (K_oxygenase)

PHATRDRAFT_44774 - (K_oxygenase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44774
PHATRDRAFT_44920 2og-feoxygenase (2OG-FeII_Oxy_3 superfamily)

PHATRDRAFT_44920 - 2og-feoxygenase (2OG-FeII_Oxy_3 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44920
PHATRDRAFT_47332 (Cytochrom_C superfamily)

PHATRDRAFT_47332 - (Cytochrom_C superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47332
PHATRDRAFT_47360 heat shock factor (HSF_DNA-bind superfamily)

PHATRDRAFT_47360 - heat shock factor (HSF_DNA-bind superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47360
PHATRDRAFT_48104

PHATRDRAFT_48104 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48104
PHATRDRAFT_48172

PHATRDRAFT_48172 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48172
PHATRDRAFT_48199

PHATRDRAFT_48199 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48199
PHATRDRAFT_4823 guanylate cyclase (CHD)

PHATRDRAFT_4823 - guanylate cyclase (CHD)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_4823
PHATRDRAFT_48253 (Malectin)

PHATRDRAFT_48253 - (Malectin)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48253
PHATRDRAFT_48454

PHATRDRAFT_48454 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48454
PHATRDRAFT_48509

PHATRDRAFT_48509 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48509
PHATRDRAFT_48833 lipopolysaccharide a protein (CAP10 superfamily)

PHATRDRAFT_48833 - lipopolysaccharide a protein (CAP10 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48833
PHATRDRAFT_49216 calciumvoltage-alpha 2 delta subunit 4 (vWFA superfamily)

PHATRDRAFT_49216 - calciumvoltage-alpha 2 delta subunit 4 (vWFA superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49216
PHATRDRAFT_49454

PHATRDRAFT_49454 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49454
PHATRDRAFT_49558 tetratricopeptide tpr_2 (HSF_DNA-bind)

PHATRDRAFT_49558 - tetratricopeptide tpr_2 (HSF_DNA-bind)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49558
PHATRDRAFT_49772 epidermis specific serine protease (Tryp_SPc)

PHATRDRAFT_49772 - epidermis specific serine protease (Tryp_SPc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49772
PHATRDRAFT_49826 phosphatidyl synthase (Methyltransf_21)

PHATRDRAFT_49826 - phosphatidyl synthase (Methyltransf_21)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49826
PHATRDRAFT_49851 pentatricopeptide repeat protein

PHATRDRAFT_49851 - pentatricopeptide repeat protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49851
PHATRDRAFT_49944

PHATRDRAFT_49944 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49944
PHATRDRAFT_50179 conserved protein

PHATRDRAFT_50179 - conserved protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50179
PHATRDRAFT_50217

PHATRDRAFT_50217 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50217
PHATRDRAFT_50522

PHATRDRAFT_50522 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50522
PHATRDRAFT_53967

PHATRDRAFT_53967 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_53967
PHATRDRAFT_8543 elicitin-like protein 6 precursor

PHATRDRAFT_8543 - elicitin-like protein 6 precursor

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8543
GO ID Go Term p-value q-value Cluster
GO:0016042 lipid catabolism 0.00788854 1 Phatr_bicluster_0021
GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolism 0.0426705 1 Phatr_bicluster_0021
GO:0009190 cyclic nucleotide biosynthesis 0.0652197 1 Phatr_bicluster_0021
GO:0006470 protein amino acid dephosphorylation 0.0726248 1 Phatr_bicluster_0021
GO:0019538 protein metabolism 0.133385 1 Phatr_bicluster_0021
GO:0015986 ATP synthesis coupled proton transport 0.13684 1 Phatr_bicluster_0021
GO:0006468 protein amino acid phosphorylation 0.14602 1 Phatr_bicluster_0021
GO:0007242 intracellular signaling cascade 0.153923 1 Phatr_bicluster_0021
GO:0006396 RNA processing 0.200086 1 Phatr_bicluster_0021
GO:0006355 regulation of transcription, DNA-dependent 0.213253 1 Phatr_bicluster_0021
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