CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Zm.390.1.S1_at

Gene name dwarf plant3
Homology with Arabidopsis Similar to At4g39260: GR-RBP8 (HF=4e+0)

Module size 6 genes

NF 0.70

%ile 91.8

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
0.91 99.0 0.97 Zm.390.1.S1_at U32579.1 dwarf plant3 - 4e+0 At4g39260 GR-RBP8 O.I. H.G. S.X.
0.83 95.6 0.95 Zm.3892.8.S1_a_at CA404367 Elongation factor 1 alpha - 0 At1g07920 elongation factor 1-alpha / EF-1-alpha O.I. H.G. S.X.
0.73 89.9 0.95 Zm.15524.1.A1_at CF632238 - - 4e-1 At5g46780 VQ motif-containing protein O.I. H.G. S.X.
0.63 81.1 0.95 Zm.2901.1.A1_at BM351614 hypothetical protein LOC100277716 - 2e+0 At5g58784 dehydrodolichyl diphosphate synthase O.I. H.G. S.X.
0.59 76.1 0.95 Zm.11783.1.A1_at BM380733 hypothetical protein LOC100191487 - 4e+0 At5g42510 disease resistance-responsive family protein O.I. H.G. S.X.
0.42 51.3 0.95 Zm.2784.1.A1_at CF629950 hypothetical protein LOC100276915 - 5e-8 At5g17420 IRX3 (IRREGULAR XYLEM 3) O.I. H.G. S.X.

Click More genes

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
8.6 98.1 GSM320453 protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep1 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
8.3 98.0 GSM320455 protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep3 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
7.9 97.9 GSM162267 Mutant 1 with array type maize from Affymetrix GSE7030 Phenotypic and molecular characterisation of a novel Bt2 allele in maize
6.4 97.5 GSM320454 protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep2 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
5.8 97.2 GSM162265 Wild type 1 with array type maize from Affymetrix GSE7030 Phenotypic and molecular characterisation of a novel Bt2 allele in maize
4.3 96.1 GSM162264 Mutant 2 with array type maize from Affymetrix GSE7030 Phenotypic and molecular characterisation of a novel Bt2 allele in maize
4.3 96.1 GSM320447 protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep1 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
4.0 95.8 GSM162266 Wild type 2 with array type maize from Affymetrix GSE7030 Phenotypic and molecular characterisation of a novel Bt2 allele in maize
4.0 95.8 GSM320449 protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep3 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
3.5 95.1 GSM320451 protocol: Cot filtration (CF) - genotype: Mo17 maize inbred - rep2 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At4g39260, orthologous to the query gene, Zm.390.1.S1_at

VF %ile Gene ID Repr. ID Gene Name Func. O.I. H.G. S.X. Other DB
1.00 100.0 At4g39260 830082 GR-RBP8 Encodes a glycine-rich protein with RNA binding domain at the N-terminus. Protein is structurally similar to proteins induced by stress in other plants. Gene expression is induced by cold. Transcript undergoes circadian oscillations that is depressed by overexpression of AtGRP7. A substrate of the type III effector HopU1 (mono-ADP-ribosyltransferase). O.I. H.G. S.X.
0.40 50.8 At2g21660 816705 CCR2 (COLD, CIRCADIAN RHYTHM, AND RNA BINDING 2) Encodes a small glycine-rich RNA binding protein that is part of a negative-feedback loop through which AtGRP7 regulates the circadian oscillations of its own transcript. Gene expression is induced by cold. GRP7 appears to promote stomatal opening and reduce tolerance under salt and dehydration stress conditions, but, promotes stomatal closing and thereby increases stress tolerance under conditions of cold tolerance. Loss of function mutations have increased susceptibility to pathogens suggesting a role in mediating innate immune response. Mutants are also late flowering in a non-photoperiodic manner and are responsive to vernalization suggesting an interaction with the autonomous flowering pathway. There is a reduction of mRNA export from the nucleus in grp7 mutants. GRP7:GFP fusion proteins can be found in the cytosol and nucleus. A substrate of the type III effector HopU1 (mono-ADP-ribosyltransferase). O.I. H.G. S.X.
0.29 30.3 At5g10780 830945 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOP O.I. H.G. S.X.
0.22 17.5 At4g12590 826872 unknown protein F:molecular_function unknown;P:biological_process unknown;C:mitochondrion, endoplasmic reticulum;MFOP O.I. H.G. S.X.
0.09 2.8 At1g27630 839655 CYCT1 F:cyclin-dependent protein kinase activity;P:regulation of cell cycle;C:nucleus;MFPO O.I. H.G. S.X.
0.08 2.3 At3g27300 822349 G6PD5 (glucose-6-phosphate dehydrogenase 5) F:glucose-6-phosphate dehydrogenase activity;P:response to cadmium ion, pentose-phosphate shunt, oxidative branch, glucose metabolic process;C:cytosol, chloroplast;BOMPFV O.I. H.G. S.X.
0.03 0.6 At3g17020 820958 universal stress protein (USP) family protein F:molecular_function unknown;P:response to cold, response to stress;C:plasma membrane;BPAFOM O.I. H.G. S.X.

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

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