Co-expression analysis

Gene ID At3g13610
Gene name oxidoreductase, 2OG-Fe(II) oxygenase family protein
Module size 25 genes
NF 0.49
%ile 69.6



Co-expression network

pink confeito: Transcription factor, green bicone: Binding protein, red cone: Enzyme protein, blue sphere: Other protein
large node: VF over 0.50, middle node: over 0.25, small node: below 0.25



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. O.I. H.G. S.X. Other DB
0.6579.61.00At3g13610820564oxidoreductase, 2OG-Fe(II) oxygenase family proteinF:oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, dioxygenase activity;P:coumarin biosynthetic process, response to cyclopentenone, hydrogen peroxide-mediated programmed cell death, secondary metabolic process;C:cellular_component unknown;POBFMO.I.H.G.S.X.
0.6882.20.79At4g25090828612respiratory burst oxidase, putative / NADPH oxidase, putativeF:in 7 functions;P:oxidation reduction;C:cytosolic ribosome, vacuole;MFPBOAO.I.H.G.S.X.
0.6680.10.76At4g17800827502DNA-binding protein-relatedF:unknown;P:biological_process unknown;C:cellular_component unknown;PBMOFO.I.H.G.S.X.
0.6075.70.72At1g13300837890myb family transcription factorF:transcription factor activity, DNA binding;P:regulation of transcription;C:unknown;POVBMFO.I.H.G.S.X.
0.5974.70.73At4g05200825868protein kinase family proteinF:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVAO.I.H.G.S.X.
0.5873.80.75At2g42350818836zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVO.I.H.G.S.X.
0.5873.80.77At1g29280839802WRKY65member of WRKY Transcription Factor; Group II-eO.I.H.G.S.X.
0.5773.80.71At2g21045816639-F:unknown;P:aging;C:unknown;BOPAFMO.I.H.G.S.X.
0.5773.80.74At5g22890832353zinc finger (C2H2 type) family proteinF:transcription factor activity;P:response to chitin, regulation of transcription;C:intracellular;MOPFO.I.H.G.S.X.
0.5673.00.72At5g63600836480FLS5 (FLAVONOL SYNTHASE 5)encodes a protein whose sequence is similar to flavonol synthaseO.I.H.G.S.X.
0.5673.00.71At3g25930822190universal stress protein (USP) family proteinF:molecular_function unknown;P:response to stress;C:cellular_component unknown;PO.I.H.G.S.X.
0.5469.50.71At5g50760835148auxin-responsive family proteinF:molecular_function unknown;P:response to auxin stimulus;C:unknown;POO.I.H.G.S.X.
0.4963.50.72At2g44010819006unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4963.50.74At4g28890829010protein binding / ubiquitin-protein ligase/ zinc ion bindingF:ubiquitin-protein ligase activity, protein binding, zinc ion binding;P:unknown;C:endomembrane system;PMOFVBO.I.H.G.S.X.
0.4862.50.73At2g35000818064zinc finger (C3HC4-type RING finger) family proteinE3 ligase-like protein induced by chitin oligomers.O.I.H.G.S.X.
0.4862.50.74At5g65210836646TGA1F:transcription factor activity, calmodulin binding, DNA binding;P:defense response to bacterium;C:nucleus;POMO.I.H.G.S.X.
0.4659.80.81At2g35270818094DNA-binding protein-relatedF:unknown;P:biological_process unknown;C:cellular_component unknown;PMBOFVAO.I.H.G.S.X.
0.4558.30.77At3g26470822252-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3948.40.71At1g31885840079transporterF:transporter activity;P:transport;C:integral to membrane, membrane;BPOMFAVO.I.H.G.S.X.
0.3745.00.72At1g09740837502ethylene-responsive protein, putativeF:molecular_function unknown;P:response to stress;C:cellular_component unknown;BPAOFMO.I.H.G.S.X.
0.3643.60.71At3g13760820585DC1 domain-containing proteinF:protein binding, zinc ion binding;P:unknown;C:membrane;PMOO.I.H.G.S.X.
0.3541.60.71At1g47480841155hydrolaseF:hydrolase activity;P:metabolic process;C:cellular_component unknown;BOPFMAVO.I.H.G.S.X.
0.3541.60.74At2g28960817445leucine-rich repeat protein kinase, putativeF:in 6 functions;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVAO.I.H.G.S.X.
0.3235.70.74At1g22440838850alcohol dehydrogenase, putativeF:oxidoreductase activity, binding, catalytic activity, zinc ion binding;P:oxidation reduction, metabolic process;C:cellular_component unknown;BOPFMAVO.I.H.G.S.X.
0.3133.80.73At5g37740833752C2 domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;MPFOO.I.H.G.S.X.

Click More genes

Link to AtGenExpress Visualization Tool



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
125.799.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
68.899.9GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
54.999.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
47.299.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.599.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
39.899.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.799.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.699.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
37.199.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.499.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.799.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.099.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.999.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.899.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.799.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.599.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.099.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.599.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.599.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.899.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.499.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.099.7GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
27.699.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.499.6GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
23.999.6GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.399.6GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
19.799.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
19.199.6GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
18.599.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
18.599.5GSM311296Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
16.799.5GSM311283Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
16.699.5GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
15.599.5GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
14.599.4E-MEXP-1094-raw-cel-1379507273
14.099.4GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.999.3E-MEXP-1094-raw-cel-1379507313
10.499.2GSM184908Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.599.1GSM311284Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
8.899.0GSM176878AWP_AL_Txed_2GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0741GO:0010421Programmed cell death induced by hydrogen peroxide. Programmed cell death is the cell death resulting from activation of endogenous cellular processes.Link to AmiGO
0.0711GO:0009805The chemical reactions and pathways resulting in the formation of coumarins, a class of compounds derived from the phenylacrylic skeleton of cinnamic acids.Link to AmiGO
0.0671GO:0019748The chemical reactions and pathways resulting in many of the chemical changes of compounds that are not necessarily required for growth and maintenance of cells, and are often unique to a taxon. In multicellular organisms secondary metabolism is generally carried out in specific cell types, and may be useful for the organism as a whole. In unicellular organisms, secondary metabolism is often used for the production of antibiotics or for the utilization and acquisition of unusual nutrients.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.044100980Metabolism of xenobiotics by cytochrome P450Link to KEGG PATHWAY
0.041100350Tyrosine metabolismLink to KEGG PATHWAY
0.035100071Fatty acid metabolismLink to KEGG PATHWAY

Inter-species module comparison

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



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