Co-expression analysis

Gene ID At4g16770
Gene name iron ion binding / oxidoreductase/ oxidoreductase, 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
Module size 39 genes
NF 0.17
%ile 14.5



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
1.00100.01.00At4g16770827383iron ion binding / oxidoreductase/ oxidoreductase, 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 donorsF: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, oxidoreductase activity, iron ion binding;P:flavonoid biosynthetic process;C:peroxisome;POBFMO.I.H.G.S.X.
0.3745.00.86At3g45770823720oxidoreductase, zinc-binding dehydrogenase family proteinF:zinc ion binding, ATP binding;P:oxidation reduction, metabolic process;C:mitochondrion, chloroplast, nucleus;BOFMPAO.I.H.G.S.X.
0.3745.00.85At1g12050837757fumarylacetoacetase, putativeF:fumarylacetoacetase activity, catalytic activity;P:aromatic amino acid family metabolic process, metabolic process;C:cellular_component unknown;BOMFAPO.I.H.G.S.X.
0.3439.80.86At1g50480841470THFS (10-FORMYLTETRAHYDROFOLATE SYNTHETASE)10-formyltetrahydrofolate synthetase (THFS) mRNA, completeO.I.H.G.S.X.
0.3338.10.88At1g48420841263D-CDES (D-CYSTEINE DESULFHYDRASE)Encodes an enzyme that decomposes D-cysteine into pyruvate, H2S, and NH3. Only D-cysteine but not L-cysteine was converted by D-CDes to pyruvate, H2S, and NH3. Unlike homologous bacterial enzymes, it does not have 1-aminocyclopropane-1-carboxylate deaminase activity.O.I.H.G.S.X.
0.2830.30.87At2g41530818751SFGH (S-FORMYLGLUTATHIONE HYDROLASE)Encodes a protein with S-formylglutathione hydrolase activity.O.I.H.G.S.X.
0.2726.20.85At3g10850820255GLY2glyoxalase II cytoplasmic isozyme (Glx2-2) mRNA, completeO.I.H.G.S.X.
0.2624.40.85At1g08110837330lactoylglutathione lyase, putative / glyoxalase I, putativeF:calmodulin binding, lactoylglutathione lyase activity;P:response to cadmium ion, carbohydrate metabolic process;C:chloroplast;BOFPMAO.I.H.G.S.X.
0.2624.40.86At5g41210834123ATGSTT1 (GLUTATHIONE S-TRANSFERASE THETA 1)Encodes glutathione transferase belonging to the theta class of GSTs. Naming convention according to Wagner et al. (2002).O.I.H.G.S.X.
0.2522.60.86At5g14680831320universal stress protein (USP) family proteinF:molecular_function unknown;P:response to stress;C:cellular_component unknown;BPAMOFO.I.H.G.S.X.
0.2522.60.85At1g43620840946UDP-glucose:sterol glucosyltransferase, putativeF:transferase activity, transferring glycosyl groups;P:lipid glycosylation, carbohydrate metabolic process, metabolic process;C:plasma membrane, vacuole;BMFPOVO.I.H.G.S.X.
0.2319.30.87At3g62970825472protein binding / zinc ion bindingF:protein binding, zinc ion binding;P:N-terminal protein myristoylation;C:unknown;MPOFBO.I.H.G.S.X.
0.2217.50.85At5g53350835416CLPXCLP protease regulatory subunit CLPX mRNA, nuclear geneO.I.H.G.S.X.
0.2217.50.85At1g16460838216ATRDH2 (ARABIDOPSIS THALIANA RHODANESE HOMOLOGUE 2)encodes a cytoplasmic thiosulfate:cyanide sulfurtransferase, activity of which increased the rhodanese activity of transgenic yeast. Can also act as a mercaptopyruvate sulfurtransferase.O.I.H.G.S.X.
0.2014.40.85At1g33780840269unknown proteinF:unknown;P:unknown;C:chloroplast thylakoid lumen, chloroplast;BOPO.I.H.G.S.X.
0.2014.40.86At1g11930837744alanine racemase family proteinF:pyridoxal phosphate binding;P:biological_process unknown;C:cellular_component unknown;OBMFPAO.I.H.G.S.X.
0.1912.70.86At1g30910839975molybdenum cofactor sulfurase family proteinF:molybdenum ion binding, Mo-molybdopterin cofactor sulfurase activity, pyridoxal phosphate binding, catalytic activity;P:biological_process unknown;C:chloroplast;BMFOPAO.I.H.G.S.X.
0.1912.70.87At3g62560825430GTP-binding protein, putativeF:GTP binding;P:intracellular protein transport;C:endomembrane system, intracellular;MOFPBAO.I.H.G.S.X.
0.1811.40.86At5g54540835542-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBMO.I.H.G.S.X.
0.1811.40.85At1g74680843807exostosin family proteinF:catalytic activity;P:biological_process unknown;C:endomembrane system, membrane;POMBFO.I.H.G.S.X.
0.1811.40.85At4g02340828063epoxide hydrolase, putativeF:epoxide hydrolase activity, catalytic activity;P:unknown;C:peroxisome;BOMFPAVO.I.H.G.S.X.
0.146.80.86At1g01710839254acyl-CoA thioesterase family proteinF:cyclic nucleotide binding, acyl-CoA thioesterase activity;P:acyl-CoA metabolic process;C:peroxisome;BOMFPO.I.H.G.S.X.
0.146.80.85At3g55140824680pectate lyase family proteinF:lyase activity, pectate lyase activity;P:unknown;C:unknown;BPFOO.I.H.G.S.X.
0.135.80.85At1g04690839450KAB1 (POTASSIUM CHANNEL BETA SUBUNIT)F:oxidoreductase activity, potassium channel activity;P:oxidation reduction, potassium ion transport;C:plasma membrane, membrane;BOFMPAO.I.H.G.S.X.
0.124.90.85At4g17370827449oxidoreductase family proteinF:electron carrier activity, oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:cellular_component unknown;BOFMAPO.I.H.G.S.X.
0.124.90.85At5g08320830728unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPO.I.H.G.S.X.
0.124.90.85At3g05010819662transmembrane protein, putativeF:molecular_function unknown;P:biological_process unknown;C:membrane;MPBOO.I.H.G.S.X.
0.124.90.85At4g35360829689pantothenate kinase family proteinF:pantothenate kinase activity;P:unknown;C:cellular_component unknown;MPBAOO.I.H.G.S.X.
0.124.90.87At5g43940834417HOT5 (sensitive to hot temperatures 5)Encodes a glutathione-dependent formaldehyde dehydrogenase (also known as class III type alcohol dehydrogenase) reduces S-nitrosoglutathione (GSNO), the condensation product of glutathione and NO, that is a naturally occurring NO reservoir and also a reactive nitrogen intermediate. Gene expression is reduced by wounding and induced by salicylic acid. Is required for the acclimation of plants to high temperature and for fertility.O.I.H.G.S.X.
0.114.10.87At1g11090837650hydrolase, alpha/beta fold family proteinF:hydrolase activity;P:biological_process unknown;C:cellular_component unknown;BOPMFVAO.I.H.G.S.X.
0.114.10.85At3g29160822566AKIN11 (Arabidopsis SNF1 kinase homolog 11)encodes a SNF1-related protein kinase that physically interacts with SCF subunit SKP1/ASK1 and 20S proteosome subunit PAD1. It has also been shown to interact with the WD protein PDL1.O.I.H.G.S.X.
0.114.10.86At3g48750824036CDC2 (CELL DIVISION CONTROL 2)A-type cyclin-dependent kinase. Together with its specific inhibitor, the Kip-related protein, KRP2 they regulate the mitosis-to-endocycle transition during leaf development. Dominant negative mutations abolish cell division. Loss of function phenotype has reduced fertility with failure to transmit via pollen. Pollen development is arrested at the second mitotic division. Expression is regulated by environmental and chemical signals. Part of the promoter is responsible for expression in trichomes. Functions as a positive regulator of cell proliferation during development of the male gametophyte, embryo and endosperm. Phosphorylation of threonine 161 is required for activation of its associated kinase.O.I.H.G.S.X.
0.114.10.85At3g12290820409tetrahydrofolate dehydrogenase/cyclohydrolase, putativeF:binding, catalytic activity;P:folic acid and derivative biosynthetic process, metabolic process;C:chloroplast;OBMFPAO.I.H.G.S.X.
0.092.80.85At1g56610842116syntaxin-related family proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.092.80.85At4g22750828372zinc finger (DHHC type) family proteinF:zinc ion binding;P:unknown;C:endomembrane system;MOFPO.I.H.G.S.X.
0.082.30.86At1g34470840349permease-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOBO.I.H.G.S.X.
0.082.30.86At2g39930818580ISA1 (ISOAMYLASE 1)Encodes an isoamylase-type debranching enzyme. Mutations in this gene cause the loss of detectable isoamylase activity and the disruption of normal starch structure. Mutants have reduced starch content and abnormally structured amylopectins and phytoglycogens. It has been postulated that AtISA1 interacts with AtISA2 to form the Iso1 complex.O.I.H.G.S.X.
0.082.30.85At3g55530824718SDIR1 (SALT- AND DROUGHT-INDUCED RING FINGER1)Encodes an intracellular membrane localized protein with E3 ligase activity that is involved in regulation of ABA signaling. Loss of function alleles show decreased sensitivity to ABA. Overexpression results in increased sensitivity to ABA.O.I.H.G.S.X.
0.071.90.85At1g54370841878NHX5F:sodium:hydrogen antiporter activity, sodium ion transmembrane transporter activity;P:lithium ion transport, sodium ion transport;C:integral to membrane;BMOPFAO.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
61.299.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
57.199.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
56.599.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
50.999.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
44.199.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.399.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.999.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
40.699.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.499.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.099.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.599.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.599.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.599.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.199.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
33.499.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.899.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.299.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.199.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.599.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.299.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.899.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.299.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
26.699.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.599.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.999.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.299.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.099.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
17.399.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.899.4GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
13.799.4GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
13.199.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
12.699.3GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.399.3GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.399.3GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.299.3GSM131702ATGE_82_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.299.3GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
11.899.3GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
11.499.3GSM10456WT Post-Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
11.499.3GSM10454WT Post-Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
11.399.3GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
11.199.2GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.699.2GSM131700ATGE_82_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.299.2E-MEXP-807-raw-cel-1173273170
9.899.1GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
8.799.0E-MEXP-807-raw-cel-1173273196

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0822GO:0009396The chemical reactions and pathways resulting in the formation of folic acid and its derivatives.Link to AmiGO
0.0592GO:0009813The chemical reactions and pathways resulting in the formation of flavonoids, a group of phenolic derivatives containing a flavan skeleton.Link to AmiGO
0.0501GO:0009072The chemical reactions and pathways involving aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.071200670One carbon pool by folateLink to KEGG PATHWAY
0.063200350Tyrosine metabolismLink to KEGG PATHWAY
0.056200630Glyoxylate and dicarboxylate metabolismLink to KEGG PATHWAY
0.049100062Fatty acid elongation in mitochondriaLink 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



Back to the CoP portal site

Back to the KAGIANA project homepage