CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Contig2857_at

Gene name
Homology with Arabidopsis Similar to At1g66680: AR401 (HF=4e-3)

Module size 6 genes

NF 0.63

%ile 84.7

Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.80 92.5 0.88 Contig2857_at Contig2857 - - 4e-3 At1g66680 AR401 O.I. H.G. S.X.
0.67 84.7 0.85 Contig4811_at Contig4811 - - 5e-3 At2g45750 dehydration-responsive family protein O.I. H.G. S.X.
0.55 72.0 0.88 Contig2858_s_at Contig2858 - - 1e-3 At1g66680 AR401 O.I. H.G. S.X.
0.50 66.9 0.88 Contig11077_at Contig11077 - - 7e+0 At5g65320 basic helix-loop-helix (bHLH) family protein O.I. H.G. S.X.
0.44 58.9 0.87 Contig14526_at Contig14526 - - 2e-16 At2g21790 RNR1 (RIBONUCLEOTIDE REDUCTASE 1) O.I. H.G. S.X.
0.40 53.1 0.88 Contig4810_at Contig4810 - - 2e-2 At4g00750 dehydration-responsive family protein O.I. H.G. S.X.

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Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
6.1 98.0 GSM282038 Malting_kilned_Morex_rep1 GSE11200 Expression data from malting barley seeds
6.1 98.0 GSM238431 Embryo 25DAF; Seed development; Rep 2 GSE9365 Expression data from barley maturing and germinating grains
5.5 97.6 GSM282040 Malting_kilned_Morex_rep2 GSE11200 Expression data from malting barley seeds
5.2 97.4 GSM238433 Embryo 0 h; Seed germination; Rep 2 GSE9365 Expression data from barley maturing and germinating grains
5.0 97.2 GSM261077 Albina e-16 Hardened rep1 GSE10332 Transcriptome Analysis of Cold Acclimation in Barley Albina and Xantha Mutants1
5.0 97.2 GSM238430 Embryo 25DAF; Seed development; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
4.7 96.9 GSM261072 Albina f-17 Hardened rep2 GSE10332 Transcriptome Analysis of Cold Acclimation in Barley Albina and Xantha Mutants1
4.7 96.9 GSM261078 Albina e-16 Hardened rep2 GSE10332 Transcriptome Analysis of Cold Acclimation in Barley Albina and Xantha Mutants1
4.6 96.8 GSM261073 Albina f-17 Hardened rep3 GSE10332 Transcriptome Analysis of Cold Acclimation in Barley Albina and Xantha Mutants1
4.6 96.8 GSM238432 Embryo 0 h; Seed germination; Rep 1 GSE9365 Expression data from barley maturing and germinating grains

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At1g66680, orthologous to the query gene, Contig2857_at

VF %ile Gene ID Repr. ID Gene Name Func. O.I. H.G. S.X. Other DB
0.46 59.8 At1g66680 842986 AR401 unknown function O.I. H.G. S.X.
0.67 81.6 At3g54380 824604 SAC3/GANP family protein F:molecular_function unknown;P:biological_process unknown;C:unknown;MFPO O.I. H.G. S.X.
0.63 78.1 At3g24200 822006 FAD binding / monooxygenase/ oxidoreductase/ oxidoreductase, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen F:oxidoreductase activity, monooxygenase activity, FAD binding, oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen;P:ubiquinone biosynthetic process, metabolic process;C:unknown;BOFMPA O.I. H.G. S.X.
0.61 76.7 At3g20800 821628 rcd1-like cell differentiation protein, putative F:molecular_function unknown;P:multicellular organismal development;C:cellular_component unknown;MFOP O.I. H.G. S.X.
0.61 76.7 At3g59380 825107 FTA (FARNESYLTRANSFERASE A) Encodes the alpha-subunit shared between protein farnesyltransferase and protein geranylgeranyltransferase-I. Involved in protein prenylation: covalent attachment of the C-15 isoprene farnesyl or the C-20 isoprene geranylgeranyl groups to the C-terminal end of some proteins. Involved in shoot and flower meristem homeostasis, and response to ABA and drought. Also regulates leaf cell shape. Mutant is epistatic to era1. O.I. H.G. S.X.
0.58 73.8 At2g34690 818034 ACD11 (ACCELERATED CELL DEATH 11) Gene product transports the glycolipid precursor sphingosine between membranes in vitro. Mutant constitutively expresses defense-related genes that accompany the hypersensitive response normally triggered by avirulent pathogens. O.I. H.G. S.X.
0.40 50.8 At4g16100 827296 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO O.I. H.G. S.X.
0.38 46.7 At1g49300 841353 RABG3E (RAB GTPASE HOMOLOG G3E) encodes a small GTPase involved in membrane trafficking. Gene expression is induced by hydrogen peroxide and lines. Lines overexpressing the gene are more tolerant to high salt and hyperosmotic conditions. O.I. H.G. S.X.
0.34 39.8 At1g04830 839404 RabGAP/TBC domain-containing protein F:RAB GTPase activator activity;P:regulation of Rab GTPase activity;C:intracellular;MOFPB O.I. H.G. S.X.

Select a plant to compare co-expressed genes between species.
Glycine_max
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays

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