Phatr_bicluster_0051 Residual: 0.31
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_0051 0.31 Phaeodactylum tricornutum
Displaying 1 - 27 of 27
PHATRDRAFT_11916 1-acyl-sn-glycerol-3-phosphate acyltransferase (LPLAT_AGPAT-like)

PHATRDRAFT_11916 - 1-acyl-sn-glycerol-3-phosphate acyltransferase (LPLAT_AGPAT-like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11916
PHATRDRAFT_13725 iaa amidohydrolase (M20_Acy1)

PHATRDRAFT_13725 - iaa amidohydrolase (M20_Acy1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_13725
PHATRDRAFT_14552 trna-ia37 thiotransferase enzyme (PRK14333)

PHATRDRAFT_14552 - trna-ia37 thiotransferase enzyme (PRK14333)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14552
PHATRDRAFT_16803 (AarF)

PHATRDRAFT_16803 - (AarF)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16803
PHATRDRAFT_16963 glutaminyl-trna synthetase (PRK05347)

PHATRDRAFT_16963 - glutaminyl-trna synthetase (PRK05347)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16963
PHATRDRAFT_30636 (DUF4336)

PHATRDRAFT_30636 - (DUF4336)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_30636
PHATRDRAFT_32923 inorganic pyrophosphatase (pyrophosphatase)

PHATRDRAFT_32923 - inorganic pyrophosphatase (pyrophosphatase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32923
PHATRDRAFT_34146 60s ribosomal protein l66 (KOW_RPL6)

PHATRDRAFT_34146 - 60s ribosomal protein l66 (KOW_RPL6)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34146
PHATRDRAFT_34889

PHATRDRAFT_34889 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34889
PHATRDRAFT_34894

PHATRDRAFT_34894 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34894
PHATRDRAFT_40435

PHATRDRAFT_40435 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40435
PHATRDRAFT_42636 transportin-serine arginine rich cg2848-pa (Xpo1 superfamily)

PHATRDRAFT_42636 - transportin-serine arginine rich cg2848-pa (Xpo1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42636
PHATRDRAFT_43194 ae family transporter: anion exchange (HCO3_cotransp superfamily)

PHATRDRAFT_43194 - ae family transporter: anion exchange (HCO3_cotransp superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43194
PHATRDRAFT_43555

PHATRDRAFT_43555 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43555
PHATRDRAFT_43940 mitochondrial transcription termination factor family protein mterf family protein (mTERF superfamily)

PHATRDRAFT_43940 - mitochondrial transcription termination factor family protein mterf family protein (mTERF superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43940
PHATRDRAFT_45818 (MFS)

PHATRDRAFT_45818 - (MFS)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45818
PHATRDRAFT_46068

PHATRDRAFT_46068 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46068
PHATRDRAFT_46330 (Mem_trans superfamily)

PHATRDRAFT_46330 - (Mem_trans superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46330
PHATRDRAFT_49533 plastidic atp adp transporter (TLC)

PHATRDRAFT_49533 - plastidic atp adp transporter (TLC)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49533
PHATRDRAFT_49843 mopfamily transporter (MATE_like superfamily)

PHATRDRAFT_49843 - mopfamily transporter (MATE_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49843
PHATRDRAFT_54495 iron-responsive transporter-related (FPN1 superfamily)

PHATRDRAFT_54495 - iron-responsive transporter-related (FPN1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54495
PHATRDRAFT_55177 auman spermidine synthase (AdoMet_MTases)

PHATRDRAFT_55177 - auman spermidine synthase (AdoMet_MTases)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_55177
PHATRDRAFT_573 inositol 5-phosphatase (EEP superfamily)

PHATRDRAFT_573 - inositol 5-phosphatase (EEP superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_573
PHATRDRAFT_8112 cdp diglyceride synthetase cg7962-pa (CTP_transf_1 superfamily)

PHATRDRAFT_7678 - cdp diglyceride synthetase cg7962-pa (CTP_transf_1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_7678
PHATRDRAFT_8926 aminoacyl-trna synthetase cofactor (tRNA_bindingDomain superfamily)

PHATRDRAFT_8112 - aminoacyl-trna synthetase cofactor (tRNA_bindingDomain superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8112
PHATRDRAFT_9860 phenylalanyl-trnaalpha subunit (pheS)

PHATRDRAFT_8926 - phenylalanyl-trnaalpha subunit (pheS)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8926

PHATRDRAFT_9860 - embryonic ectoderm development (WD40 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_9860
GO ID Go Term p-value q-value Cluster
GO:0008654 phospholipid biosynthesis 0.00039425 0.902043 Phatr_bicluster_0051
GO:0006424 glutamyl-tRNA aminoacylation 0.00690418 1 Phatr_bicluster_0051
GO:0006432 phenylalanyl-tRNA aminoacylation 0.0103397 1 Phatr_bicluster_0051
GO:0006418 tRNA aminoacylation for protein translation 0.0133392 1 Phatr_bicluster_0051
GO:0006820 anion transport 0.0407661 1 Phatr_bicluster_0051
GO:0006412 protein biosynthesis 0.104611 1 Phatr_bicluster_0051
GO:0008152 metabolism 0.270353 1 Phatr_bicluster_0051
GO:0006468 protein amino acid phosphorylation 0.455951 1 Phatr_bicluster_0051
GO:0006810 transport 0.492171 1 Phatr_bicluster_0051
GO:0006508 proteolysis and peptidolysis 0.549807 1 Phatr_bicluster_0051
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