Co-expression analysis

Gene ID At5g66110
Gene name metal ion binding
Module size 72 genes
NF 0.75
%ile 92.1



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
1.00100.01.00At5g66110836743metal ion bindingF:metal ion binding;P:metal ion transport;C:plasma membrane;PFMO.I.H.G.S.X.
0.9296.00.90At5g45310834567unknown proteinF:unknown;P:unknown;C:endomembrane system;OMVBFPAO.I.H.G.S.X.
0.8994.60.87At3g61040825276CYP76C7encodes a protein with cytochrome P450 domainO.I.H.G.S.X.
0.8793.50.82At4g02280828081SUS3 (sucrose synthase 3)Encodes a protein with sucrose synthase activity (SUS3).O.I.H.G.S.X.
0.8793.50.88At5g43770834399proline-rich family proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;MBPOFVAO.I.H.G.S.X.
0.8793.50.89At1g75490843885DNA binding / transcription factorencodes a member of the DREB subfamily A-2 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are eight members in this subfamily including DREB2A AND DREB2B that are involved in response to drought.O.I.H.G.S.X.
0.8693.10.83At3g22500821821ATECP31late embryogenesis abundant (LEA) proteinO.I.H.G.S.X.
0.8592.40.82At5g607608361972-phosphoglycerate kinase-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMPBAFVO.I.H.G.S.X.
0.8592.40.87At5g55750835669hydroxyproline-rich glycoprotein family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOFBVAO.I.H.G.S.X.
0.8592.40.85At2g42000818800plant EC metallothionein-like family 15 proteinF:zinc ion binding;P:biological_process unknown;C:unknown;PMOBFO.I.H.G.S.X.
0.8491.90.81At3g15280820759unknown proteinF:molecular_function unknown;P:unknown;C:mitochondrion;PMO.I.H.G.S.X.
0.8491.90.88At5g16460831507-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.8391.40.90At2g19900816509ATNADP-ME1 (NADP-malic enzyme 1)The malic enzyme (EC 1.1.1.40) encoded by AtNADP-ME1 is expressed in response to developmental and cell-specific signals.O.I.H.G.S.X.
0.8391.40.89At1g02700839492unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;PMFOO.I.H.G.S.X.
0.8391.40.88At5g42290834234transcription activator-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.8391.40.86At4g09610826546GASA2 (GAST1 PROTEIN HOMOLOG 2)F:molecular_function unknown;P:response to gibberellin stimulus;C:endomembrane system;PO.I.H.G.S.X.
0.8290.90.83At5g39720833968AIG2L (AVIRULENCE INDUCED GENE 2 LIKE PROTEIN)F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBOFAO.I.H.G.S.X.
0.8290.90.89At4g27530828862unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.8290.90.85At5g47810834832PFK2 (PHOSPHOFRUCTOKINASE 2)F:6-phosphofructokinase activity;P:glycolysis;C:cytosol, 6-phosphofructokinase complex;BOMFPAVO.I.H.G.S.X.
0.8190.40.89At3g58450825014universal stress protein (USP) family proteinF:molecular_function unknown;P:response to stress;C:cellular_component unknown;BPAOFMO.I.H.G.S.X.
0.8190.40.89At1g27990839692unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.8089.80.88At5g01670831701aldose reductase, putativeF:oxidoreductase activity;P:oxidation reduction;C:unknown;BMOFPAO.I.H.G.S.X.
0.8089.80.81At1g24735839082O-methyltransferaseF:O-methyltransferase activity;P:unknown;C:cytosol;BOPMFAO.I.H.G.S.X.
0.8089.80.84At2g23640816896reticulon family protein (RTNLB13)F:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum;MPOO.I.H.G.S.X.
0.8089.80.86At3g05260819690short-chain dehydrogenase/reductase (SDR) family proteinF:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:cellular_component unknown;BOMFPAVO.I.H.G.S.X.
0.7989.10.82At2g23110816843-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7989.10.82At5g54000835483oxidoreductase, 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, oxidoreductase activity;P:biological_process unknown;C:cellular_component unknown;POBFMO.I.H.G.S.X.
0.7888.60.80At2g42560818856late embryogenesis abundant domain-containing protein / LEA domain-containing proteinF:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;BOMPFVAO.I.H.G.S.X.
0.7888.60.78At1g77950844130AGL67 (AGAMOUS-LIKE 67)F:transcription factor activity;P:regulation of transcription, DNA-dependent;C:nucleus;PMFOO.I.H.G.S.X.
0.7788.00.79At3g22490821820late embryogenesis abundant protein, putative / LEA protein, putativeF:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;PBMVAOO.I.H.G.S.X.
0.7788.00.83At1g16770838248unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;FPBO.I.H.G.S.X.
0.7788.00.81At5g57790835888unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7788.00.84At3g51810824344EM1 (LATE EMBRYOGENESIS ABUNDANT 1)Encodes a ABA-inducible protein that accumulates during seed maturation, in parallel with its corresponding mRNA but with a 3 d delay. During germination, AtEm1 protein undergoes two successive cleavages before being degraded. Both proteins are more stable than the corresponding mRNA. The gene can be activated by the basic leucine zipper transcription factor ABI5. Expressed predominantly in provascular tissues with the strongest expression in the root tip.O.I.H.G.S.X.
0.7788.00.78At4g22100828299BGLU3 (BETA GLUCOSIDASE 2)F:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;BOPMFAO.I.H.G.S.X.
0.7687.40.83At1g72100843541late embryogenesis abundant domain-containing protein / LEA domain-containing proteinF:unknown;P:embryonic development ending in seed dormancy;C:endomembrane system;BPOMFAVO.I.H.G.S.X.
0.7687.40.77At1g14930838058major latex protein-related / MLP-relatedF:molecular_function unknown;P:response to biotic stimulus, defense response;C:cellular_component unknown;PO.I.H.G.S.X.
0.7687.40.84At2g28420817390lactoylglutathione lyase family protein / glyoxalase I family proteinF:lactoylglutathione lyase activity;P:carbohydrate metabolic process;C:cellular_component unknown;BOPMFAO.I.H.G.S.X.
0.7687.40.85At3g12960820482unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7687.40.84At4g09600826545GASA3 (GAST1 PROTEIN HOMOLOG 3)One of GASA gene family which is related to a GA-stimulated transcript (GAST) from tomato.O.I.H.G.S.X.
0.7687.40.81At2g19320816449unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7586.90.86At3g50980824262XERO1 (DEHYDRIN XERO 1)F:molecular_function unknown;P:response to water, response to stress;C:cellular_component unknown;PMO.I.H.G.S.X.
0.7586.90.76At3g21370821691BGLU19 (BETA GLUCOSIDASE 19)F:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;BOPMFAO.I.H.G.S.X.
0.7586.90.86At1g29680839845unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPFO.I.H.G.S.X.
0.7486.10.86At3g11050820276ATFER2 (ferritin 2)F:oxidoreductase activity, ferric iron binding, binding, transition metal ion binding;P:response to oxidative stress, cellular iron ion homeostasis, response to abscisic acid stimulus, iron ion transport;C:chloroplast;MBPOAFO.I.H.G.S.X.
0.7486.10.77At1g80090844349CBS domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;FPMOBO.I.H.G.S.X.
0.7486.10.86At5g65550836681UDP-glucoronosyl/UDP-glucosyl transferase family proteinF:transferase activity, transferring glycosyl groups;P:metabolic process;C:unknown;PMBVOFO.I.H.G.S.X.
0.7385.50.77At2g33070817869NSP2 (NITRILE SPECIFIER PROTEIN 2)Encodes a nitrile-specifier protein NSP2. NSP2 is one out of five (At3g16400/NSP1, At2g33070/NSP2, At3g16390/NSP3, At3g16410/NSP4 and At5g48180/NSP5) A. thaliana epithiospecifier protein (ESP) homologues that promote simple nitrile, but not epithionitrile or thiocyanate formation.O.I.H.G.S.X.
0.7385.50.85At2g33520817917-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFO.I.H.G.S.X.
0.7385.50.77At3g53040824470late embryogenesis abundant protein, putative / LEA protein, putativeF:unknown;P:embryonic development ending in seed dormancy;C:unknown;MBOFPAVO.I.H.G.S.X.
0.7385.50.82At4g21020827849late embryogenesis abundant domain-containing protein / LEA domain-containing proteinF:unknown;P:embryonic development ending in seed dormancy;C:unknown;OMBPFVAO.I.H.G.S.X.
0.7385.50.86At5g22470832308NAD+ ADP-ribosyltransferaseF:NAD+ ADP-ribosyltransferase activity;P:protein amino acid ADP-ribosylation;C:intracellular, nucleus;MOPFBVO.I.H.G.S.X.
0.7385.50.84At4g10020826593AtHSD5 (hydroxysteroid dehydrogenase 5)F:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:endomembrane system;BOMFPAVO.I.H.G.S.X.
0.7385.50.78At4g18650827599transcription factor-relatedF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMO.I.H.G.S.X.
0.7284.80.84At5g55240835617caleosin-related family protein / embryo-specific protein, putativeF:calcium ion binding;P:biological_process unknown;C:cellular_component unknown;PFOO.I.H.G.S.X.
0.7184.20.80At5g57550835859XTR3 (XYLOGLUCAN ENDOTRANSGLYCOSYLASE 3)xyloglucan endotransglycosylase-related protein (XTR3)O.I.H.G.S.X.
0.7184.20.83At2g21820816718unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7083.50.79At5g07330830624unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;PO.I.H.G.S.X.
0.7083.50.80At5g44310834454late embryogenesis abundant domain-containing protein / LEA domain-containing proteinF:unknown;P:embryonic development ending in seed dormancy;C:unknown;OMBFPAVO.I.H.G.S.X.
0.7083.50.80At3g17520821017late embryogenesis abundant domain-containing protein / LEA domain-containing proteinF:unknown;P:embryonic development ending in seed dormancy;C:endomembrane system;MOBFPVAO.I.H.G.S.X.
0.7083.50.82At3g56350824802superoxide dismutase (Mn), putative / manganese superoxide dismutase, putativeF:superoxide dismutase activity, metal ion binding;P:superoxide metabolic process, removal of superoxide radicals;C:mitochondrion, endomembrane system;BOFMPAVO.I.H.G.S.X.
0.7083.50.84At5g01300830983phosphatidylethanolamine-binding family proteinF:phosphatidylethanolamine binding;P:biological_process unknown;C:cellular_component unknown;BOAPFO.I.H.G.S.X.
0.6982.90.79At2g34315817993disease resistance protein-relatedF:GTP binding;P:biological_process unknown;C:cellular_component unknown;PMFO.I.H.G.S.X.
0.6982.90.77At1g22600838866-F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MPFO.I.H.G.S.X.
0.6781.60.78At1g54870841926binding / catalytic/ oxidoreductaseF:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:chloroplast;BOMFPAVO.I.H.G.S.X.
0.6781.60.80At5g45690834608unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPFO.I.H.G.S.X.
0.6680.10.80At4g02690828203glutamate bindingF:glutamate binding;P:unknown;C:unknown;BOMPFVO.I.H.G.S.X.
0.6680.10.80At4g31830829312unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.6579.60.77At4g16160827308mitochondrial import inner membrane translocase subunit Tim17/Tim22/Tim23 family proteinHomologous to pea OEP16 and barley pPORA (OEP16), a member of Arabidopsis OEP16 family. Two OEP16 genes are closely related to each other and are conserved in all land plants, OEP16-2, also named OEP16-S, and OEP16-1 (renamed OEP16-L) are result of the gene duplication event that occurred prior to divergence of bryophytes and seed plants. Predominantly expressed in seed and is not inducible by cold treatment. atOEP16-S gained an additional exon. The promoter region of atOEP16-S (but not atOEP16-L) contains multiple G-box ABA-responsive elements. The atOEP16-S promoter conferred developmentally regulated seed- and pollen-specific GUS expression in tobacco.O.I.H.G.S.X.
0.6478.90.78At1g05510837053-Protein is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds.O.I.H.G.S.X.
0.6176.70.82At2g25340817072ATVAMP712 (VESICLE-ASSOCIATED MEMBRANE PROTEIN 712)Member of Synaptobrevin-like AtVAMP7C, v-SNARE protein family.O.I.H.G.S.X.
0.4558.30.79At5g50170835082C2 domain-containing protein / GRAM domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;MPFOO.I.H.G.S.X.
0.3541.60.78At5g50240835089PIMT2 (PROTEIN-L-ISOASPARTATE METHYLTRANSFERASE 2)L-isoaspartyl methyltransferase 2 (PIMT2)gene, alternatively spliced.O.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
86.599.9GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
76.999.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
55.099.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
47.599.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
42.899.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.799.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
42.099.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.799.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.499.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.799.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.699.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.699.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.399.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.999.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.999.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.899.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.299.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
35.099.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.699.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.699.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.999.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.699.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.099.7E-ATMX-35-raw-cel-1574334816
28.499.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.699.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.399.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.299.6E-ATMX-35-raw-cel-1574334832
22.899.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
19.799.6GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
19.199.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
17.599.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
17.099.5GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
16.499.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.799.4GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
11.999.3GSM184478Lateral Root Cap root cells 2hr KCl control treated, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.199.2E-ATMX-35-raw-cel-1574334800
9.899.1GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.199.1E-MEXP-1443-raw-cel-1581869573
9.199.1E-MEXP-1344-raw-cel-1559561563
9.099.1GSM131608ATGE_42_DGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0271GO:0006801The chemical reactions and pathways involving superoxide, the superoxide anion O2- (superoxide free radical), or any compound containing this species.Link to AmiGO
0.0271GO:0006471The transfer, from NAD, of ADP-ribose to protein amino acids.Link to AmiGO
0.0261GO:0080028The chemical reactions and pathways resulting in the formation of a nitrile, an organic compound containing trivalent nitrogen attached to one carbon atom.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.023100941Flavonoid biosynthesisLink to KEGG PATHWAY
0.017104130SNARE interactions in vesicular transportLink to KEGG PATHWAY
0.015100620Pyruvate 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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