Co-expression analysis

Gene ID At5g59540
Gene name oxidoreductase, 2OG-Fe(II) oxygenase family protein
Module size 46 genes
NF 0.28
%ile 33.0



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
1.00100.01.00At5g59540836073oxidoreductase, 2OG-Fe(II) oxygenase family proteinF:oxidoreductase activity;P:biological_process unknown;C:cellular_component unknown;POBFMO.I.H.G.S.X.
0.4761.20.84At1g066508371752-oxoglutarate-dependent dioxygenase, putativeencodes a protein whose sequence is similar to 2-oxoglutarate-dependent dioxygenaseO.I.H.G.S.X.
0.4659.80.83At2g24860817023chaperone protein dnaJ-relatedF:unfolded protein binding, heat shock protein binding;P:protein folding;C:unknown;PBMOFO.I.H.G.S.X.
0.4457.20.84At5g02790831798In2-1 protein, putativeF:unknown;P:response to cadmium ion;C:unknown;PBMOFAO.I.H.G.S.X.
0.4152.40.83At4g34120829558LEJ1 (LOSS OF THE TIMING OF ET AND JA BIOSYNTHESIS 1)F:molecular_function unknown;P:biological_process unknown;C:chloroplast stroma, chloroplast;BAOPMFO.I.H.G.S.X.
0.4152.40.85At1g02475839236-F:molecular_function unknown;P:biological_process unknown;C:chloroplast;BOPO.I.H.G.S.X.
0.4152.40.86At1g54520841894unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPOMO.I.H.G.S.X.
0.4050.80.85At1g74640843803unknown proteinF:unknown;P:biological_process unknown;C:chloroplast thylakoid membrane, chloroplast, chloroplast envelope;BPAOO.I.H.G.S.X.
0.4050.80.83At4g27990828912YGGT family proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast, chloroplast envelope;BOPO.I.H.G.S.X.
0.4050.80.83At5g01750831684unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PFO.I.H.G.S.X.
0.4050.80.84At5g19540832074unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;POBO.I.H.G.S.X.
0.3948.40.83At5g13720831217-F:unknown;P:unknown;C:chloroplast, chloroplast inner membrane, chloroplast envelope;BOPAO.I.H.G.S.X.
0.3643.60.83At1g32070840099ATNSI (NUCLEAR SHUTTLE INTERACTING)Encodes a nuclear acetyltransferase (NSI)that interacts with the geminivirus movement protein NSP. This interaction is required for viral infection and systemic spread. Acetylates the viral coat protein (CP) in vitro, but not NSP. NSP inhibits NSI activity in vitro. NSI is highly transcribed in phloem and in xylem parenchyma cells, and in the apical meristem and guard cells, within young tissues in Arabidopsis, and its expression is turned off as tissues mature.O.I.H.G.S.X.
0.3643.60.83At1g67280843048lactoylglutathione lyase, putative / glyoxalase I, putativeF:lactoylglutathione lyase activity, metal ion binding;P:response to cold, carbohydrate metabolic process;C:thylakoid, thylakoid lumen, stromule, chloroplast, chloroplast stroma;BOMFPAO.I.H.G.S.X.
0.3643.60.83At4g03410827932peroxisomal membrane protein-relatedF:molecular_function unknown;P:biological_process unknown;C:integral to membrane, chloroplast;MFPOO.I.H.G.S.X.
0.3643.60.83At5g48590834916unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBOO.I.H.G.S.X.
0.3541.60.83At5g19855832106unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPOO.I.H.G.S.X.
0.3338.10.86At1g05010839345EFE (ETHYLENE-FORMING ENZYME)Encodes 1-aminocyclopropane-1-carboxylate oxidaseO.I.H.G.S.X.
0.3338.10.83At4g349208296441-phosphatidylinositol phosphodiesterase-relatedF:phospholipase C activity, phosphoric diester hydrolase activity;P:triglyceride biosynthetic process, intracellular signaling cascade, lipid metabolic process, phospholipid biosynthetic process;C:cellular_component unknown;BMFPOO.I.H.G.S.X.
0.3032.10.84At4g35760829729-F:unknown;P:unknown;C:chloroplast;OBPO.I.H.G.S.X.
0.2930.30.84At3g56050824771protein kinase family proteinF:protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:unknown;PMOBFVAO.I.H.G.S.X.
0.2930.30.85At5g49940835057NFU2 (NIFU-LIKE PROTEIN 2)Encodes a protein containing the NFU domain and functions as a molecular scaffold for iron-sulfur cluster assembly and delivery. Homologous to the cyanobacterial CNFU protein and is targeted to the chloroplast.O.I.H.G.S.X.
0.2830.30.83At1g63970842700ISPFEncodes a protein with 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity. The protein's activity was confirmed by heterologous expression of phenotypic complementation of the E. coli ispF mutant. Plants defective in this gene display an albino lethal phenotype.Homolog of E. coli IspFO.I.H.G.S.X.
0.2830.30.84At5g03880831679electron carrierF:electron carrier activity;P:cell redox homeostasis;C:chloroplast thylakoid membrane, chloroplast;BOPAFMO.I.H.G.S.X.
0.2726.20.83At5g38660833856APE1 (ACCLIMATION OF PHOTOSYNTHESIS TO ENVIRONMENT)mutant has Altered acclimation responses;O.I.H.G.S.X.
0.2726.20.84At2g42590818859GRF9 (GENERAL REGULATORY FACTOR 9)14-3-3 gene. Binds calcium and displays induced structural changes.O.I.H.G.S.X.
0.2726.20.83At3g22890821861APS1 (ATP SULFURYLASE 1)encodes ATP sulfurylase, the first enzyme in the sulfate assimilation pathway of Arabidopsis.O.I.H.G.S.X.
0.2624.40.83At2g04700815013ferredoxin thioredoxin reductase catalytic beta chain family proteinF:ferredoxin:thioredoxin reductase activity, ferredoxin reductase activity;P:unknown;C:chloroplast;BOPAO.I.H.G.S.X.
0.2624.40.83At1g65260842833PTAC4 (PLASTID TRANSCRIPTIONALLY ACTIVE4)F:unknown;P:biological_process unknown;C:in 8 components;BOMVFPAO.I.H.G.S.X.
0.2522.60.83At2g28800817429ALB3 (ALBINO 3)member of Chloroplast membrane protein ALBINO3 familyO.I.H.G.S.X.
0.2420.70.83At4g04040825716MEE51 (maternal effect embryo arrest 51)F:diphosphate-fructose-6-phosphate 1-phosphotransferase activity;P:embryonic development ending in seed dormancy, glycolysis;C:pyrophosphate-dependent phosphofructokinase complex, beta-subunit complex;BOPMFAVO.I.H.G.S.X.
0.2420.70.83At1g79510844289unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPMOO.I.H.G.S.X.
0.2319.30.84At3g15360820775TRX-M4 (ARABIDOPSIS THIOREDOXIN M-TYPE 4)encodes a prokaryotic thioredoxinO.I.H.G.S.X.
0.2115.80.83At3g44300823555NIT2 (nitrilase 2)Encodes an enzyme that catalyzes the hydrolysis of indole-3-acetonitrile (IAN) to indole-3-acetic acid (IAA) (nitrile aminohydrolase, EC 3.5.5.1) and IAN to indole-3-acetamide (IAM) at lower levels. Mutants have reduced sensitivity to IAN and are sensitive to IAA. This enzyme likely participates in other non-auxin-related metabolic pathways.O.I.H.G.S.X.
0.2014.40.83At2g44870819096unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBO.I.H.G.S.X.
0.2014.40.86At2g44490819056PEN2 (PENETRATION 2)Encodes a glycosyl hydrolase that localizes to peroxisomes and acts as a component of an inducible preinvasion resistance mechanism. Required for mlo resistance.O.I.H.G.S.X.
0.1912.70.84At4g15545827228unknown proteinF:unknown;P:unknown;C:unknown;MOBPFVO.I.H.G.S.X.
0.1811.40.84At2g30950817646VAR2 (VARIEGATED 2)Metalloprotease that functions in thylakoid membrane biogenesis. Involved in the repair of PSII following damaged incurred during photoinhibition. Forms a complex with VAR1. Mutants show a variegated phenotype, which decreases during development. Transcript and protein levels increase with light intensity.O.I.H.G.S.X.
0.1811.40.83At1g50320841454ATHXencodes a prokaryotic thioredoxinO.I.H.G.S.X.
0.1710.20.83At4g04640825797ATPC1One of two genes (with ATPC2) encoding the gamma subunit of Arabidopsis chloroplast ATP synthase.O.I.H.G.S.X.
0.1710.20.83At1g76080843940CDSP32 (CHLOROPLASTIC DROUGHT-INDUCED STRESS PROTEIN OF 32 KD)Encodes a thioredoxin localized in chloroplast stroma. Known as CDSP32 (CHLOROPLASTIC DROUGHT-INDUCED STRESS PROTEIN OF 32 KD).O.I.H.G.S.X.
0.168.80.83At1g23310838940GGT1 (GLUTAMATE:GLYOXYLATE AMINOTRANSFERASE)Identified by cloning the gene that corresponded to a purified protein having glyoxylate aminotransferase activity. Localized to the peroxisome and thought to be involved in photorespiration/ metabolic salvage pathway.O.I.H.G.S.X.
0.135.80.85At3g61440825317CYSC1 (CYSTEINE SYNTHASE C1)Encodes a cysteine synthase isomer CysC1. The isomer is however less effective in cysteine biosynthesis. It is involved in beta-cyanoalanine biosynthesis, an intermediate of cyanide detoxification pathway.O.I.H.G.S.X.
0.103.40.83At1g59870842281PEN3 (PENETRATION 3)ATP binding cassette transporter. Localized to the plasma membrane in uninfected cells. In infected leaves, the protein concentrated at infection sites. Contributes to nonhost resistance to inappropriate pathogens that enter by direct penetration in a salicylic acid–dependent manner. Required for mlo resistance. Has Cd transporter activity (Cd2+ extrusion pump) and contributes to heavy metal resistance.O.I.H.G.S.X.
0.082.30.83At2g26670817208TED4 (REVERSAL OF THE DET PHENOTYPE 4)Encodes a plastid heme oxygenase necessary for phytochrome chromophore biosynthesis and for coupling the expression of some nuclear genes to the functional state of the chloroplast.O.I.H.G.S.X.
0.061.40.83At3g29400822601ATEXO70E1 (exocyst subunit EXO70 family protein E1)A member of EXO70 gene family, putative exocyst subunits, conserved in land plants. Arabidopsis thaliana contains 23 putative EXO70 genes, which can be classified into eight clusters on the phylogenetic tree.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
48.399.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.599.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
47.599.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
47.099.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.799.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.799.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.599.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.999.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.699.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.399.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.999.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.699.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.099.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.799.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.999.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.899.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.499.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.799.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
34.199.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.999.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.199.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
31.899.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
31.199.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.499.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
28.999.7GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
26.899.7GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
25.399.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
25.299.6GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
19.299.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
18.199.5GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
13.999.4GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.099.2GSM266668Arabidopsis, root cells, columella root cap, -Fe, replicate 3GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
10.599.2GSM133756Lindsey_1-10_heart-stage-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
10.599.2E-MEXP-807-raw-cel-1173273144
10.499.2GSM284388Arabidopsis GMPE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.199.2E-MEXP-807-raw-cel-1173273252
9.899.1GSM184893Arabidopsis, root cells, columella root cap, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.699.1GSM184911Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0943GO:0010027A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the thylakoid membrane.Link to AmiGO
0.0822GO:0042344The chemical reactions and pathways resulting in the breakdown of indole glucosinolates, sulfur-containing compounds that have a common structure linked to an R group derived from tryptophan.Link to AmiGO
0.0732GO:0043085Any process that activates or increases the activity of an enzyme.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.048200380Tryptophan metabolismLink to KEGG PATHWAY
0.037200270Cysteine and methionine metabolismLink to KEGG PATHWAY
0.031100920Sulfur 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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