CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Contig5297_at

Gene name
Homology with Arabidopsis Similar to At1g64550: ATGCN3 (HF=4e-16)

Module size 6 genes

NF 0.80

%ile 96.8

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
0.73 88.7 0.97 Contig5297_at Contig5297 - - 4e-16 At1g64550 ATGCN3 O.I. H.G. S.X.
0.91 98.1 0.97 Contig4175_at Contig4175 - - 1e-19 At3g07100 protein transport protein Sec24, putative O.I. H.G. S.X.
0.80 92.5 0.97 Contig4760_s_at Contig4760 - - 1e+0 At4g38700 disease resistance-responsive family protein O.I. H.G. S.X.
0.71 87.1 0.97 Contig11464_at Contig11464 - - 6e-20 At1g55740 AtSIP1 (Arabidopsis thaliana seed imbibition 1) O.I. H.G. S.X.
0.67 84.7 0.97 Contig5117_at Contig5117 - - 8e-2 At5g60500 undecaprenyl pyrophosphate synthetase family protein / UPP synthetase family protein O.I. H.G. S.X.
0.61 78.7 0.97 Contig6995_at Contig6995 - - 2e-8 At5g57270 unknown 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
7.2 98.5 GSM238435 Embryo 24 h; Seed germination; Rep 2 GSE9365 Expression data from barley maturing and germinating grains
6.9 98.3 GSM238434 Embryo 24 h; Seed germination; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
5.2 97.4 GSM238436 Embryo 48 h; Seed germination; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
4.3 96.4 GSM282032 Malting_day1_Morex_rep1 GSE11200 Expression data from malting barley seeds
4.2 96.3 GSM213441 Barley seeds control in Hoagland solution for 12hr GSE8618 P. aeruginosa virulent factor to barley
4.2 96.3 GSM238428 Embryo 16DAF; Seed development; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
4.2 96.3 GSM238432 Embryo 0 h; Seed germination; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
4.0 96.0 GSM238415 Endosperm 8DAF; Seed development; Rep 2 GSE9365 Expression data from barley maturing and germinating grains
3.9 95.8 GSM282037 Malting_day1_Morex_rep2 GSE11200 Expression data from malting barley seeds
3.8 95.7 GSM238412 Endosperm 4DAF; Seed development; Rep 1 GSE9365 Expression data from barley maturing and germinating grains

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At1g64550, orthologous to the query gene, Contig5297_at

VF %ile Gene ID Repr. ID Gene Name Func. O.I. H.G. S.X. Other DB
0.80 89.8 At1g64550 842763 ATGCN3 member of GCN subfamily O.I. H.G. S.X.
0.67 81.6 At4g11420 826746 EIF3A (EUKARYOTIC TRANSLATION INITIATION FACTOR 3A) Encodes a subunit of eukaryotic initiation factor 3 (eIF3), a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilization of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits. O.I. H.G. S.X.
0.67 81.6 At4g19210 827661 ATRLI2 member of RLI subfamily O.I. H.G. S.X.
0.67 81.6 At5g27470 832806 seryl-tRNA synthetase / serine--tRNA ligase F:serine-tRNA ligase activity, aminoacyl-tRNA ligase activity, nucleotide binding, ATP binding;P:response to cadmium ion, seryl-tRNA aminoacylation;C:cytosol;OBMFAP O.I. H.G. S.X.
0.50 65.3 At3g57290 824896 EIF3E (EUKARYOTIC TRANSLATION INITIATION FACTOR 3E) Encodes a protein that is found in not only the eif3 complex but also in association with subunits of the COP9 signalosome. eIF3e appears to be subjected to proteasome-dependent degradation that requires the PCI domain of eIF3e. The level of eIF3e present in cells appears to affect the rate of translation. 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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