Co-expression analysis

Gene ID At1g07890
Gene name APX1 (ascorbate peroxidase 1)
Module size 44 genes
NF 0.50
%ile 70.7



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
0.7385.51.00At1g07890837304APX1 (ascorbate peroxidase 1)Encodes a cytosolic ascorbate peroxidase APX1. Ascorbate peroxidases are enzymes that scavenge hydrogen peroxide in plant cells. Eight types of APX have been described for Arabidopsis: three cytosolic (APX1, APX2, APX6), two chloroplastic types (stromal sAPX, thylakoid tAPX), and three microsomal (APX3, APX4, APX5) isoforms. At least part of the induction of heat shock proteins during light stress in Arabidopsis is mediated by H2O2 that is scavenged by APX1. Expression of the gene is downregulated in the presence of paraquat, an inducer of photoxidative stress.O.I.H.G.S.X.
0.7586.90.95At3g55440824710TPI (TRIOSEPHOSPHATE ISOMERASE)Encodes triosephosphate isomerase.O.I.H.G.S.X.
0.6579.60.92At3g07480819936electron carrier/ iron-sulfur cluster bindingF:electron carrier activity, iron-sulfur cluster binding;P:unknown;C:mitochondrion, chloroplast;OBMPFO.I.H.G.S.X.
0.6378.10.93At3g27240822343cytochrome c1, putativeF:electron carrier activity, iron ion binding, heme binding, electron transporter, transferring electrons within CoQH2-cytochrome c reductase complex activity;P:unknown;C:in 6 components;OBMFPO.I.H.G.S.X.
0.6176.70.93At4g32470829382ubiquinol-cytochrome C reductase complex 14 kDa protein, putativeF:ubiquinol-cytochrome-c reductase activity;P:mitochondrial electron transport, ubiquinol to cytochrome c;C:mitochondrion, plasma membrane, plastid, mitochondrial respiratory chain complex III, membrane;MPFOO.I.H.G.S.X.
0.6075.70.94At4g11150826716TUF (VACUOLAR ATP SYNTHASE SUBUNIT E1)Encodes a vacuolar H+-ATPase subunit E isoform 1 which is required for Golgi organization and vacuole function in embryogenesis.O.I.H.G.S.X.
0.5974.70.92At1g16700838239NADH-ubiquinone oxidoreductase 23 kDa subunit, mitochondrial, putativeF:NADH dehydrogenase (ubiquinone) activity, metal ion binding;P:unknown;C:mitochondrion, respiratory chain complex I;BOAPMFO.I.H.G.S.X.
0.5873.80.94At5g19760832096dicarboxylate/tricarboxylate carrier (DTC)F:oxidative phosphorylation uncoupler activity, binding;P:transport, mitochondrial transport;C:in 6 components;MFPOO.I.H.G.S.X.
0.5873.80.93At4g22310828326unknown proteinF:unknown;P:biological_process unknown;C:mitochondrion;MFPOO.I.H.G.S.X.
0.5673.00.92At5g52840835361NADH-ubiquinone oxidoreductase-relatedF:oxidoreductase activity, acting on NADH or NADPH;P:photorespiration;C:mitochondrion, mitochondrial membrane, chloroplast, respiratory chain complex I, membrane;MFPOO.I.H.G.S.X.
0.5570.60.92At3g52300824395ATPQ (ATP SYNTHASE D CHAIN, MITOCHONDRIAL)F:hydrogen ion transmembrane transporter activity;P:response to salt stress;C:in 8 components;MPFOO.I.H.G.S.X.
0.5469.50.92At5g08060830700unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;POO.I.H.G.S.X.
0.5469.50.94At3g04120819567GAPC1 (GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE C SUBUNIT 1)encodes cytosolic GADPH (C subunit) involved in the glycolytic pathway but also interacts with H2O2 potentially placing it in a signalling cascade induced by ROS.O.I.H.G.S.X.
0.5469.50.93At2g47170819330ARF1A1CGene encoding ADP-ribosylation factor and similar to other ARFs and ARF-like proteins. Members of this family are known to be essential for vesicle coating and uncoating and functions in GTP-binding. The gene is shown to play a role in cell division, cell expansion and cellulose production using antisense construct.O.I.H.G.S.X.
0.5368.60.93At4g02580828130NADH-ubiquinone oxidoreductase 24 kDa subunit, putativeF:electron carrier activity, NAD or NADH binding, oxidoreductase activity, NADH dehydrogenase (ubiquinone) activity;P:response to oxidative stress, mitochondrial electron transport, NADH to ubiquinone;C:mitochondrion, respiratory chain complex I;BOMFPAO.I.H.G.S.X.
0.5368.60.93At3g04830819643bindingF:binding;P:biological_process unknown;C:cellular_component unknown;MOFBAPO.I.H.G.S.X.
0.5368.60.93At2g33040817866ATP synthase gamma chain, mitochondrial (ATPC)F:hydrogen ion transporting ATP synthase activity, rotational mechanism, proton-transporting ATPase activity, rotational mechanism;P:proton transport, ATP synthesis coupled proton transport;C:in 7 components;OBMFPAO.I.H.G.S.X.
0.5368.60.93At4g38920830047ATVHA-C3 (VACUOLAR-TYPE H(+)-ATPASE C3)F:ATPase activity;P:ATP synthesis coupled proton transport;C:vacuole;MOFBPAO.I.H.G.S.X.
0.5368.60.93At2g33470817912GLTP1 (glycolipid transfer protein 1)F:glycolipid transporter activity, glycolipid binding;P:glycolipid transport;C:plasma membrane;MFPOO.I.H.G.S.X.
0.5267.40.92At5g13430831184ubiquinol-cytochrome C reductase iron-sulfur subunit, mitochondrial, putative / Rieske iron-sulfur protein, putativeF:metal ion binding;P:oxidation reduction;C:mitochondrion, mitochondrial respiratory chain complex III, membrane;OBPMFAO.I.H.G.S.X.
0.5166.30.94At3g10920820263MSD1 (MANGANESE SUPEROXIDE DISMUTASE 1)manganese superoxide dismutase (MSD1)O.I.H.G.S.X.
0.5166.30.92At2g21870816723unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion, nucleolus, chloroplast, plastid, membrane;PMOBAO.I.H.G.S.X.
0.5166.30.92At1g47420841147-F:molecular_function unknown;P:biological_process unknown;C:mitochondrion, nucleus;POO.I.H.G.S.X.
0.5065.30.93At5g47030834749ATP synthase delta' chain, mitochondrialEncodes the mitochondrial ATP synthase subunit delta.O.I.H.G.S.X.
0.4963.50.93At1g22450838851COX6B (CYTOCHROME C OXIDASE 6B)subunit 6b of cytochrome c oxidaseO.I.H.G.S.X.
0.4963.50.94At4g37830829939cytochrome c oxidase-relatedF:cytochrome-c oxidase activity;P:unknown;C:mitochondrion;MPOO.I.H.G.S.X.
0.4862.50.93At1g49140841337NADH-ubiquinone oxidoreductase-relatedF:unknown;P:photorespiration;C:mitochondrion, mitochondrial membrane, respiratory chain complex I;FPMO.I.H.G.S.X.
0.4761.20.92At5g47570834807unknown proteinF:molecular_function unknown;P:biological_process unknown;C:respiratory chain complex I;POO.I.H.G.S.X.
0.4761.20.93At5g59880836110ADF3 (ACTIN DEPOLYMERIZING FACTOR 3)Encodes actin depolymerizing factor 3 (ADF3).O.I.H.G.S.X.
0.4761.20.92At5g63510836470GAMMA CAL1 (GAMMA CARBONIC ANHYDRASE LIKE 1)Encodes a mitochondrial gamma carbonic anhydrase-like protein. Component of the NADH dehydrogenase complex.O.I.H.G.S.X.
0.4761.20.93At5g66510836783GAMMA CA3 (GAMMA CARBONIC ANHYDRASE 3)Encodes mitochondrial gamma carbonic anhydrase. Component of the NADH dehydrogenase complex.O.I.H.G.S.X.
0.4761.20.92At4g38510830008vacuolar ATP synthase subunit B, putative / V-ATPase B subunit, putative / vacuolar proton pump B subunit, putative / V-ATPase 57 kDa subunit, putativeF:hydrogen ion transporting ATP synthase activity, rotational mechanism, hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, proton-transporting ATPase activity, rotational mechanism;P:proton transport, ATP metabolic process, ATP synthesis coupled proton transport;C:plasma membrane, vacuole, membrane, chloroplast envelope;BOPMAFO.I.H.G.S.X.
0.4457.20.94At3g08580820005AAC1 (ADP/ATP CARRIER 1)mitochondrial ADP/ATP carrierO.I.H.G.S.X.
0.4457.20.94At1g22300838837GRF10 (GENERAL REGULATORY FACTOR 10)Encodes a 14-3-3 protein. This protein is reported to interact with the BZR1 transcription factor involved in brassinosteroid signaling and may affect the nucleocytoplasmic shuttling of BZR1O.I.H.G.S.X.
0.4355.30.94At3g02090821084mitochondrial processing peptidase beta subunit, putativeF:metalloendopeptidase activity, catalytic activity, zinc ion binding, metal ion binding;P:proteolysis;C:in 11 components;BOMFPAVO.I.H.G.S.X.
0.4253.90.93At5g11770831049NADH-ubiquinone oxidoreductase 20 kDa subunit, mitochondrialF:4 iron, 4 sulfur cluster binding, NADH dehydrogenase (ubiquinone) activity, oxidoreductase activity, acting on NADH or NADPH;P:mitochondrial electron transport, NADH to ubiquinone;C:mitochondrion, respiratory chain complex I;BOPAMFO.I.H.G.S.X.
0.4152.40.93At1g26630839203FBR12 (FUMONISIN B1-RESISTANT12)Eukaryotic translation initiation factor 5A-2. Involved in programmed cell death triggered as a response to pseudomonas syringae infection. Loss of function mutants are more resistant to infection.O.I.H.G.S.X.
0.3948.40.92At1g26550839195peptidyl-prolyl cis-trans isomerase PPIC-type family proteinF:isomerase activity;P:biological_process unknown;C:cellular_component unknown;BOMFPAO.I.H.G.S.X.
0.3948.40.94At1g35160840403GF14 PHI (GF14 PROTEIN PHI CHAIN)GF14 protein phi chain member of 14-3-3 protein family. This protein is reported to interact with the BZR1 transcription factor involved in brassinosteroid signaling and may affect the nucleocytoplasmic shuttling of BZR1O.I.H.G.S.X.
0.3846.70.92At3g12290820409tetrahydrofolate dehydrogenase/cyclohydrolase, putativeF:binding, catalytic activity;P:folic acid and derivative biosynthetic process, metabolic process;C:chloroplast;OBMFPAO.I.H.G.S.X.
0.3643.60.93At1g10630837606ATARFA1F (ARABIDOPSIS THALIANA ADP-RIBOSYLATION FACTOR A1F)A member of ARF GTPase family. A thaliana has 21 members of this family, known to be essential for vesicle coating and uncoating and functions in GTP-binding. Gene encoding ADP-ribosylation factor and similar to other ARFs and ARF-like proteins. The gene is shown to play a role in cell division, cell expansion and cellulose production using antisense construct.O.I.H.G.S.X.
0.3643.60.94At3g42050823170vacuolar ATP synthase subunit H family proteinF:binding, hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, proton-transporting ATPase activity, rotational mechanism;P:ATP synthesis coupled proton transport;C:vacuolar membrane, chloroplast, plasma membrane, vacuole, plant-type vacuole;MFOPO.I.H.G.S.X.
0.3439.80.92At5g40810834081cytochrome c1, putativeF:electron carrier activity, iron ion binding, heme binding, electron transporter, transferring electrons within CoQH2-cytochrome c reductase complex activity;P:unknown;C:mitochondrial respiratory chain, mitochondrion, vacuole, mitochondrial respiratory chain complex III, membrane;OBMFPO.I.H.G.S.X.
0.3338.10.92At1g47260841129GAMMA CA2 (GAMMA CARBONIC ANHYDRASE 2)Encodes mitochondrial gamma carbonic anhydrase. Component of the NADH dehydrogenase complex.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
62.199.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
61.299.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
57.699.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
57.099.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
52.399.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
50.299.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.599.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.099.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.699.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.799.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.399.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.099.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.499.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.399.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.299.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.299.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.299.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.199.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.999.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.899.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
40.099.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.699.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.399.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.599.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.999.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
15.699.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.699.5GSM133763Lindsey_1-15_torpedo-cotyledon_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.599.5GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.699.4GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.199.4GSM133757Lindsey_1-8_heart-stage-cotyledon_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
12.499.3GSM133776Lindsey_1-1_globular-apical_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.599.1GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
9.299.1E-MEXP-1138-raw-cel-1432772682

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1305GO:0009853A light-dependent catabolic process occurring concomitantly with photosynthesis in plants (especially C3 plants) whereby dioxygen (O2) is consumed and carbon dioxide (CO2) is evolved. The substrate is glycolate formed in large quantities in chloroplasts from 2-phosphoglycolate generated from ribulose 1,5-bisphosphate by the action of ribulose-bisphosphate carboxylase; the glycolate enters the peroxisomes where it is converted by glycolate oxidase to glyoxylate which undergoes transamination to glycine. This then passes into the mitochondria where it is decarboxylated forming one molecule of serine for every two molecules of glycine. This pathway also exists in photosynthetic bacteria.Link to AmiGO
0.1155GO:0015986The transport of protons across a membrane to generate an electrochemical gradient (proton-motive force) that powers ATP synthesis.Link to AmiGO
0.0772GO:0006120The transfer of electrons from NADH to ubiquinone that occurs during oxidative phosphorylation, mediated by the multisubunit enzyme known as complex I.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.1721600190Oxidative phosphorylationLink to KEGG PATHWAY
0.033100670One carbon pool by folateLink to KEGG PATHWAY
0.031200010Glycolysis / GluconeogenesisLink to KEGG PATHWAY
0.0301901100Metabolic pathwaysLink 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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