Phatr_bicluster_0239 Residual: 0.32
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_0239 0.32 Phaeodactylum tricornutum
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Displaying 1 - 41 of 41
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PHATRDRAFT_16036 protein kinase (PKc_like superfamily)

PHATRDRAFT_16036 - protein kinase (PKc_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16036
PHATRDRAFT_16073 rh26_orysj dead-box atp-dependent rna helicase 26 (DEADc)

PHATRDRAFT_16073 - rh26_orysj dead-box atp-dependent rna helicase 26 (DEADc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16073
PHATRDRAFT_22332 htransporter (pgp related) family member (haf-4) (MdlB)

PHATRDRAFT_22332 - htransporter (pgp related) family member (haf-4) (MdlB)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_22332
PHATRDRAFT_37583

PHATRDRAFT_37583 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37583
PHATRDRAFT_37957 cyanobacterial globin family protein (globin_like superfamily)

PHATRDRAFT_37957 - cyanobacterial globin family protein (globin_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37957
PHATRDRAFT_38038 piggybac transposase uribo2 (DDE_Tnp_1_7 superfamily)

PHATRDRAFT_38038 - piggybac transposase uribo2 (DDE_Tnp_1_7 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38038
PHATRDRAFT_40303 (DUF1749 superfamily)

PHATRDRAFT_40303 - (DUF1749 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40303
PHATRDRAFT_40577

PHATRDRAFT_40577 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40577
PHATRDRAFT_42126 kdel receptor a (ER_lumen_recept superfamily)

PHATRDRAFT_42126 - kdel receptor a (ER_lumen_recept superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42126
PHATRDRAFT_43863

PHATRDRAFT_43863 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43863
PHATRDRAFT_43919 histone deacetylase superfamily (Arginase_HDAC superfamily)

PHATRDRAFT_43919 - histone deacetylase superfamily (Arginase_HDAC superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43919
PHATRDRAFT_45387 piggybac transposase uribo2 (DDE_Tnp_1_7 superfamily)

PHATRDRAFT_45387 - piggybac transposase uribo2 (DDE_Tnp_1_7 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45387
PHATRDRAFT_45423

PHATRDRAFT_45423 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45423
PHATRDRAFT_46983 membrane protein (Lung_7-TM_R superfamily)

PHATRDRAFT_46983 - membrane protein (Lung_7-TM_R superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46983
PHATRDRAFT_47576 phosphatidylglycerophosphate synthase 1 (PLDc_CDP-OH_P_transf_II_1)

PHATRDRAFT_47576 - phosphatidylglycerophosphate synthase 1 (PLDc_CDP-OH_P_transf_II_1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47576
PHATRDRAFT_47789 cortactin-binding protein 2

PHATRDRAFT_47789 - cortactin-binding protein 2

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47789
PHATRDRAFT_47857 mgc80916 protein (Sulfotransfer_2 superfamily)

PHATRDRAFT_47857 - mgc80916 protein (Sulfotransfer_2 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47857
PHATRDRAFT_47870 lipolytic protein g-d-s-l family (SGNH_hydrolase superfamily)

PHATRDRAFT_47870 - lipolytic protein g-d-s-l family (SGNH_hydrolase superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47870
PHATRDRAFT_48031

PHATRDRAFT_48031 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48031
PHATRDRAFT_48520

PHATRDRAFT_48520 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48520
PHATRDRAFT_48543

PHATRDRAFT_48543 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48543
PHATRDRAFT_48672 (RAP)

PHATRDRAFT_48672 - (RAP)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48672
PHATRDRAFT_48723 membrane-associated zn-dependent proteases 1 (TIGR00054)

PHATRDRAFT_48723 - membrane-associated zn-dependent proteases 1 (TIGR00054)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48723
PHATRDRAFT_48755 krox-like protein (TLD)

PHATRDRAFT_48755 - krox-like protein (TLD)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48755
PHATRDRAFT_48866 ximpact ortholog conserved protein seen in bacteria and eukaryotes (UPF0029)

PHATRDRAFT_48866 - ximpact ortholog conserved protein seen in bacteria and eukaryotes (UPF0029)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48866
PHATRDRAFT_48977 mgc81046 protein (KDSR-like_SDR_c)

PHATRDRAFT_48977 - mgc81046 protein (KDSR-like_SDR_c)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48977
PHATRDRAFT_49009 pentatricopeptiderepeat-containing protein

PHATRDRAFT_49009 - pentatricopeptiderepeat-containing protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49009
PHATRDRAFT_49261 zinc finger constans-like protein (CCT)

PHATRDRAFT_49261 - zinc finger constans-like protein (CCT)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49261
PHATRDRAFT_49411

PHATRDRAFT_49411 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49411
PHATRDRAFT_49447 cpi1 (cyclopropyl isomerase)

PHATRDRAFT_49447 - cpi1 (cyclopropyl isomerase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49447
PHATRDRAFT_49791 integrin alpha beta-propellor repeat protein (Methyltransf_21 superfamily)

PHATRDRAFT_49791 - integrin alpha beta-propellor repeat protein (Methyltransf_21 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49791
PHATRDRAFT_50002

PHATRDRAFT_50002 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50002
PHATRDRAFT_50103 glutamate ornithine acetyltransferase (DUF647 superfamily)

PHATRDRAFT_50103 - glutamate ornithine acetyltransferase (DUF647 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50103
PHATRDRAFT_50162 (DUF647 superfamily)

PHATRDRAFT_50162 - (DUF647 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50162
PHATRDRAFT_50185 pseudouridylate synthase-like 1 (truA)

PHATRDRAFT_50185 - pseudouridylate synthase-like 1 (truA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50185
PHATRDRAFT_50413 (Nucleotid_trans superfamily)

PHATRDRAFT_50413 - (Nucleotid_trans superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50413
PHATRDRAFT_50417 (Nucleotid_trans superfamily)

PHATRDRAFT_50417 - (Nucleotid_trans superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50417
PHATRDRAFT_50446 vacuolar protein sorting 54 (Vps54 superfamily)

PHATRDRAFT_50446 - vacuolar protein sorting 54 (Vps54 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50446
PHATRDRAFT_52412 chloride channel 7 (Voltage_gated_ClC superfamily)

PHATRDRAFT_52412 - chloride channel 7 (Voltage_gated_ClC superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_52412
PHATRDRAFT_54844 n-acetylglucosaminyltransferase i (Glyco_tranf_GTA_type superfamily)

PHATRDRAFT_54844 - n-acetylglucosaminyltransferase i (Glyco_tranf_GTA_type superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54844
PHATRDRAFT_54869 af214560_1ran gtpase activating protein 2 (LRR_RI superfamily)

PHATRDRAFT_54869 - af214560_1ran gtpase activating protein 2 (LRR_RI superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54869
GO ID Go Term p-value q-value Cluster
GO:0015671 oxygen transport 0.00984608 1 Phatr_bicluster_0239
GO:0006306 DNA methylation 0.0483639 1 Phatr_bicluster_0239
GO:0008033 tRNA processing 0.0483639 1 Phatr_bicluster_0239
GO:0015031 protein transport 0.074057 1 Phatr_bicluster_0239
GO:0006508 proteolysis and peptidolysis 0.1023 1 Phatr_bicluster_0239
GO:0008152 metabolism 0.160846 1 Phatr_bicluster_0239
GO:0006468 protein amino acid phosphorylation 0.352461 1 Phatr_bicluster_0239
GO:0006810 transport 0.38354 1 Phatr_bicluster_0239
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