Co-expression analysis

Gene ID At1g19580
Gene name GAMMA CA1 (GAMMA CARBONIC ANHYDRASE 1)
Module size 60 genes
NF 0.31
%ile 39.5



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
1.00100.01.00At1g19580838545GAMMA CA1 (GAMMA CARBONIC ANHYDRASE 1)Encodes mitochondrial gamma carbonic anhydrase. Component of the NADH dehydrogenase complex.O.I.H.G.S.X.
0.4761.20.93At4g25550828660protein bindingF:protein binding;P:biological_process unknown;C:cellular_component unknown;MOFPO.I.H.G.S.X.
0.4761.20.93At1g43190840918polypyrimidine tract-binding protein, putative / heterogeneous nuclear ribonucleoprotein, putativeF:RNA binding, nucleotide binding, nucleic acid binding;P:mRNA processing;C:nucleus;MPOFO.I.H.G.S.X.
0.4558.30.92At1g13560837917AAPT1 (AMINOALCOHOLPHOSPHOTRANSFERASE 1)Encodes aminoalcoholphosphotransferase AAPT1.O.I.H.G.S.X.
0.4457.20.93At5g36230833620eIF4-gamma/eIF5/eIF2-epsilon domain-containing proteinF:binding, translation initiation factor activity;P:regulation of translational initiation;C:membrane;MPFOVO.I.H.G.S.X.
0.4152.40.92At1g01910839305anion-transporting ATPase, putativeF:ATP binding;P:cellular metal ion homeostasis, anion transport;C:membrane;BOMAFPO.I.H.G.S.X.
0.4050.80.94At1g13320837892PP2AA3 (PROTEIN PHOSPHATASE 2A SUBUNIT A3)one of three genes encoding the 65 kDa regulatory subunit of protein phosphatase 2A (PP2A)O.I.H.G.S.X.
0.4050.80.92At1g65270842834unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum, plasma membrane;MPOO.I.H.G.S.X.
0.3846.70.93At2g29080817456ftsh3 (FtsH protease 3)encodes an FtsH protease that is localized to the mitochondrionO.I.H.G.S.X.
0.3745.00.92At3g50520824216phosphoglycerate/bisphosphoglycerate mutase family proteinF:catalytic activity;P:metabolic process;C:cellular_component unknown;BOMFPAO.I.H.G.S.X.
0.3643.60.93At5g58030835915transport protein particle (TRAPP) component Bet3 family proteinF:molecular_function unknown;P:ER to Golgi vesicle-mediated transport;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.3643.60.92At1g14140837973mitochondrial substrate carrier family proteinF:transporter activity, binding;P:transport, mitochondrial transport;C:mitochondrial inner membrane, membrane;MFPOVO.I.H.G.S.X.
0.3643.60.92At3g07300819918eukaryotic translation initiation factor 2B family protein / eIF-2B family proteinF:GTP binding, translation initiation factor activity;P:translational initiation, cellular metabolic process;C:eukaryotic translation initiation factor 2B complex;OBMFAPO.I.H.G.S.X.
0.3541.60.93At5g47320834779RPS19 (RIBOSOMAL PROTEIN S19)Nuclear encoded mitochondrial ribosome subunit.O.I.H.G.S.X.
0.3541.60.92At5g65270836652AtRABA4a (Arabidopsis Rab GTPase homolog A4a)F:GTP binding;P:protein transport, small GTPase mediated signal transduction;C:plasma membrane, membrane;MOFPBVAO.I.H.G.S.X.
0.3439.80.93At5g43940834417HOT5 (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.
0.3338.10.92At3g49420824104Got1-like family proteinF:molecular_function unknown;P:vesicle-mediated transport;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.3338.10.92At4g34270829577TIP41-like family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.3338.10.93At3g27430822364PBB1Encodes 20S proteasome beta subunit PBB1 (PBB1).O.I.H.G.S.X.
0.3338.10.93At1g20770838667unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFO.I.H.G.S.X.
0.3338.10.93At5g09900830850EMB2107 (EMBRYO DEFECTIVE 2107)Encodes one of two isoforms for the 26S proteasome regulatory protein (RN) subunit RPN5. For many functions it acts redundantly with the paralogous gene RPN5b but also appears to exert independent effects.O.I.H.G.S.X.
0.3338.10.92At4g39280830084phenylalanyl-tRNA synthetase, putative / phenylalanine--tRNA ligase, putativeF:phenylalanine-tRNA ligase activity, aminoacyl-tRNA ligase activity, nucleotide binding, ATP binding;P:phenylalanyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:cytoplasm;BOMAFPO.I.H.G.S.X.
0.3235.70.92At5g65780836707ATBCAT-5encodes a chloroplast branched-chain amino acid aminotransferase, can complement the yeast leu/iso-leu/val auxotrophy mutantO.I.H.G.S.X.
0.3235.70.93At3g25040822095ER lumen protein retaining receptor, putative / HDEL receptor, putativeF:ER retention sequence binding, receptor activity;P:protein retention in ER lumen, protein transport;C:endomembrane system, integral to membrane;MOFPO.I.H.G.S.X.
0.3235.70.93At5g05780830463RPN8A (RP NON-ATPASE SUBUNIT 8A)Encodes a putative 26S proteasome subunit RPN8a. The function of RPN8a and other 26S subunits may be required for specifying leaf adaxial identity.O.I.H.G.S.X.
0.3235.70.93At2g30980817649ASKdZeta (Arabidopsis SHAGGY-related protein kinase dZeta)Encodes a GSK3-like protein kinase. This protein can interact with the BZR1 protein involved in brassinosteroid-mediated signaling in a Y2H assay and promotes BZR1 phosphorylation in protoplasts.O.I.H.G.S.X.
0.3235.70.92At3g19980821536ATFYPP3 (FLOWER-SPECIFIC, PHYTOCHROME-ASSOCIATED PROTEIN PHOSPHATASE 3)Encodes catalytic subunit of serine/threonine protein phosphatase 2A. It can associate with phytochromes A and B in vitro. Mutant plants display an accelerated flowering phenotype.O.I.H.G.S.X.
0.3133.80.92At1g27450839636APT1 (ADENINE PHOSPHORIBOSYL TRANSFERASE 1)Adenosine phosphoribosyl transferase(E.C:2.4.2.7), involved in the one-step salvage of adenine to AMP.O.I.H.G.S.X.
0.3133.80.92At2g30100817561ubiquitin family proteinF:protein binding;P:protein modification process;C:chloroplast;MPBOFAVO.I.H.G.S.X.
0.3032.10.92At4g24940828596SAE1A (SUMO-ACTIVATING ENZYME 1A)Encodes one of the two subunits of the SUMO activation enzyme required during sumolation. Sumolation is a post-translational protein modification process similar to ubiquitination during which a polypeptide (SUMO) is covalently attached to a target protein.O.I.H.G.S.X.
0.3032.10.92At1g71900843521-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOBO.I.H.G.S.X.
0.3032.10.92At4g12590826872unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion, endoplasmic reticulum;MFOPO.I.H.G.S.X.
0.2930.30.93At5g40810834081cytochrome 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.
0.2930.30.93At3g16480820896MPPalpha (mitochondrial processing peptidase alpha subunit)F:metalloendopeptidase activity, catalytic activity, zinc ion binding, metal ion binding;P:proteolysis;C:in 8 components;BOMFPAVO.I.H.G.S.X.
0.2930.30.92At5g17070831570unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.2930.30.93At3g20390821584endoribonuclease L-PSP family proteinF:endoribonuclease activity;P:response to cadmium ion;C:thylakoid, mitochondrion, chloroplast, plastid, vacuole;BOFMAPO.I.H.G.S.X.
0.2930.30.92At3g12130820388KH domain-containing protein / zinc finger (CCCH type) family proteinF:transcription factor activity, nucleic acid binding;P:regulation of transcription;C:unknown;MPOFBO.I.H.G.S.X.
0.2930.30.92At1g47260841129GAMMA CA2 (GAMMA CARBONIC ANHYDRASE 2)Encodes mitochondrial gamma carbonic anhydrase. Component of the NADH dehydrogenase complex.O.I.H.G.S.X.
0.2930.30.92At5g19760832096dicarboxylate/tricarboxylate carrier (DTC)F:oxidative phosphorylation uncoupler activity, binding;P:transport, mitochondrial transport;C:in 6 components;MFPOO.I.H.G.S.X.
0.2830.30.92At4g02580828130NADH-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.
0.2830.30.93At1g52370841667ribosomal protein L22 family proteinF:structural constituent of ribosome;P:translation;C:ribosome, intracellular, large ribosomal subunit;BOPMFO.I.H.G.S.X.
0.2830.30.93At5g20920832216EIF2 BETAprotein synthesis initiation factor eIF2 betaO.I.H.G.S.X.
0.2830.30.92At5g49510835011PDF3 (PREFOLDIN 3)F:unfolded protein binding;P:protein folding;C:prefoldin complex;MFOPO.I.H.G.S.X.
0.2830.30.92At2g28390817387SAND family proteinF:unknown;P:unknown;C:chloroplast;MFOBPAVO.I.H.G.S.X.
0.2726.20.92At2g21600816698ATRER1BKey player of retrieval of ER membrane proteinsO.I.H.G.S.X.
0.2726.20.93At2g20360816555binding / catalytic/ coenzyme bindingF:coenzyme binding, binding, catalytic activity;P:response to salt stress;C:mitochondrion, respiratory chain complex I, membrane;BOMFPAO.I.H.G.S.X.
0.2726.20.93At1g67930843121Golgi transport complex protein-relatedF:unknown;P:unknown;C:chloroplast;OMFBPVO.I.H.G.S.X.
0.2624.40.92At1g09640837491elongation factor 1B-gamma, putative / eEF-1B gamma, putativeF:translation elongation factor activity;P:translational elongation;C:plasma membrane;BMOPFAO.I.H.G.S.X.
0.2624.40.92At5g11170830986ATP binding / ATP-dependent helicase/ helicase/ nucleic acid bindingF:helicase activity, ATP-dependent helicase activity, nucleic acid binding, ATP binding;P:response to cadmium ion;C:nucleolus;BOMFPAVO.I.H.G.S.X.
0.2624.40.92At1g56590842113clathrin adaptor complexes medium subunit family proteinF:protein binding;P:intracellular protein transport, transport, vesicle-mediated transport;C:clathrin vesicle coat, clathrin adaptor complex;MFOPO.I.H.G.S.X.
0.2522.60.93At3g24350822024SYP32 (SYNTAXIN OF PLANTS 32)member of Glycoside Hydrolase Family 17O.I.H.G.S.X.
0.2522.60.92At2g43770818980transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex, heterotrimeric G-protein complex;MFOBPAVO.I.H.G.S.X.
0.2420.70.93At5g04280830307glycine-rich RNA-binding proteinF:RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:nucleolus;MPFOBVAO.I.H.G.S.X.
0.2319.30.93At4g18040827529EIF4E (EUKARYOTIC TRANSLATION INITATION FACTOR 4E)eIF4E protein. The cum1 mutation affects the local spreading of CMV within the inoculated leaf, delaying accumulation of cucumber mosaic virus coat protein.O.I.H.G.S.X.
0.2319.30.92At5g63510836470GAMMA 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.
0.2217.50.92At1g04910839373unknown proteinF:molecular_function unknown;P:biological_process unknown;C:Golgi apparatus;PO.I.H.G.S.X.
0.2217.50.92At5g54750835565transport protein particle (TRAPP) component Bet3, putativeF:molecular_function unknown;P:ER to Golgi vesicle-mediated transport;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.2217.50.93At1g08750837397GPI-anchor transamidase, putativeF:GPI-anchor transamidase activity, cysteine-type endopeptidase activity;P:proteolysis;C:endomembrane system;MPOFABO.I.H.G.S.X.
0.2014.40.92At4g26300828736emb1027 (embryo defective 1027)F:nucleotide binding, aminoacyl-tRNA ligase activity, arginine-tRNA ligase activity, ATP binding;P:embryonic development ending in seed dormancy, arginyl-tRNA aminoacylation;C:mitochondrion, chloroplast;OBMAFPVO.I.H.G.S.X.
0.1912.70.92At5g28850833004calcium-binding EF hand family proteinF:calcium ion binding;P:biological_process unknown;C:endomembrane system;MOPFO.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
85.499.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
77.199.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
63.799.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
60.699.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
49.999.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
47.299.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.999.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.499.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.899.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.399.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.899.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.799.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.499.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.299.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.899.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.899.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.599.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.499.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.399.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.899.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.499.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.499.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.899.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.399.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
26.399.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.599.4GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.199.4GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
12.399.3GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
12.199.3GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
11.499.3GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0653GO: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
0.0482GO:0006888The directed movement of substances from the endoplasmic reticulum (ER) to the Golgi, mediated by COP II vesicles. Small COP II coated vesicles form from the ER and then fuse directly with the cis-Golgi. Larger structures are transported along microtubules to the cis-Golgi.Link to AmiGO
0.0463GO:0006413The process preceding formation of the peptide bond between the first two amino acids of a protein. This includes the formation of a complex of the ribosome, mRNA, and an initiation complex that contains the first aminoacyl-tRNA.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.051303050ProteasomeLink to KEGG PATHWAY
0.037200970Aminoacyl-tRNA biosynthesisLink to KEGG PATHWAY
0.031100440Phosphonate and phosphinate 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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