Co-expression analysis

Gene ID Contig4260_at
Gene name
Homology with ArabidopsisSimilar to At4g37980: ELI3-1 (ELICITOR-ACTIVATED GENE 3-1) (HF=5e-2)
Module size 6 genes
NF 0.42
%ile 58.7

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.EvAGI codeArabidopsis gene name O.I. H.G. S.X. Other DB
0.9198.10.96Contig4260_atContig4260--5e-2At4g37980ELI3-1 (ELICITOR-ACTIVATED GENE 3-1)O.I.H.G.S.X.
0.5774.90.96EBem09_SQ001_L06_s_atEBem09_SQ001_L06--5e-1At5g16470zinc finger (C2H2 type) family proteinO.I.H.G.S.X.
0.5572.00.95Contig2783_s_atContig2783--5e+0At5g01870lipid transfer protein, putativeO.I.H.G.S.X.
0.3545.10.96HY08D02u_s_atHY08D02u--6e+0At2g31180MYB14 (MYB DOMAIN PROTEIN 14)O.I.H.G.S.X.
0.3545.10.96Contig9459_atContig9459--1e-2At5g54800GPT1O.I.H.G.S.X.
0.1818.20.96Contig2700_x_atContig2700--1e+0At1g23890NHL repeat-containing proteinO.I.H.G.S.X.

Click More genes



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
13.999.5GSM238432Embryo 0 h; Seed germination; Rep 1GSE9365Expression data from barley maturing and germinating grainsLink to GEO
11.399.3GSM238433Embryo 0 h; Seed germination; Rep 2GSE9365Expression data from barley maturing and germinating grainsLink to GEO
9.098.9GSM282025Control_dryseed_Morex_rep1GSE11200Expression data from malting barley seedsLink to GEO
8.698.8GSM282041Control_dryseed_Morex_rep2GSE11200Expression data from malting barley seedsLink to GEO
8.398.8GSM238434Embryo 24 h; Seed germination; Rep 1GSE9365Expression data from barley maturing and germinating grainsLink to GEO
7.798.6GSM238431Embryo 25DAF; Seed development; Rep 2GSE9365Expression data from barley maturing and germinating grainsLink to GEO
6.498.1GSM146375Maythorpe shoot Control, biological rep1GSE6325Array-based genotyping and expression analysis of barley cv. Maythorpe and Golden PromiseLink to GEO
5.997.9GSM238428Embryo 16DAF; Seed development; Rep 1GSE9365Expression data from barley maturing and germinating grainsLink to GEO
5.797.7GSM146369Golden Promise shoot Control, biological rep1GSE6325Array-based genotyping and expression analysis of barley cv. Maythorpe and Golden PromiseLink to GEO
5.497.5GSM146376Maythorpe shoot Control, biological rep 2GSE6325Array-based genotyping and expression analysis of barley cv. Maythorpe and Golden PromiseLink to GEO

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At4g37980, orthologous to the query gene, Contig4260_at

VF%ileGene IDRepr. IDGene NameFunc.O.I.H.G.S.X.Other DB
1.00100.0At4g37980829954ELI3-1 (ELICITOR-ACTIVATED GENE 3-1)F:oxidoreductase activity, binding, zinc ion binding, catalytic activity;P:response to bacterium, plant-type hypersensitive response;C:unknown;BOPFMAVO.I.H.G.S.X.
0.6680.1At5g57040835808lactoylglutathione lyase family protein / glyoxalase I family proteinF:catalytic activity;P:metabolic process;C:chloroplast;BPOMO.I.H.G.S.X.
0.6378.1At3g15840820827PIFI (post-illumination chlorophyll fluorescence increase)Encodes a chloroplast-targeted protein localized in the stroma that is a novel component essential for NDH-mediated non-photochemical reduction of the plastoquinone pool in chlororespiratory electron transport.O.I.H.G.S.X.
0.5974.7At2g46100819218unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPOO.I.H.G.S.X.
0.5873.8At4g23890828489unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast thylakoid membrane, chloroplast;OBPMFO.I.H.G.S.X.
0.5773.8At2g27290817272unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast thylakoid membrane, chloroplast;MPOO.I.H.G.S.X.
0.5673.0At4g04020825714FIB (FIBRILLIN)Fibrillin precursor protein. The fibrillin preprotein, but not the mature protein interacts with ABI2. Regulated by abscisic acid response regulators. Involved in abscisic acid-mediated photoprotection.O.I.H.G.S.X.
0.5570.6At5g14970831349unknown proteinF:unknown;P:unknown;C:unknown;BOPO.I.H.G.S.X.
0.5570.6At4g09900826580MES12 (METHYL ESTERASE 12)Encodes a protein predicted to act as a carboxylesterase. It has similarity to the SABP2 methyl salicylate esterase from tobacco. This protein does not act on methyl IAA, methyl JA, MeSA, MeGA4, or MEGA9 in vitro.O.I.H.G.S.X.
0.5469.5At5g02790831798In2-1 protein, putativeF:unknown;P:response to cadmium ion;C:unknown;PBMOFAO.I.H.G.S.X.
0.5469.5At4g11570826761haloacid dehalogenase-like hydrolase family proteinF:hydrolase activity, catalytic activity;P:metabolic process;C:cellular_component unknown;BOPMAFO.I.H.G.S.X.
0.5267.4At5g65840836713-F:molecular_function unknown;P:biological_process unknown;C:chloroplast stroma, chloroplast;PMBOFO.I.H.G.S.X.
0.5267.4At1g21065838701unknown proteinF:unknown;P:biological_process unknown;C:chloroplast;BOAFPMO.I.H.G.S.X.
0.5166.3At2g42750818875DNAJ heat shock N-terminal domain-containing proteinF:unfolded protein binding, heat shock protein binding;P:protein folding;C:chloroplast;BOMFPAVO.I.H.G.S.X.
0.4963.5At1g32070840099ATNSI (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.
0.4963.5At1g68660843196-F:molecular_function unknown;P:protein catabolic process;C:unknown;BOPO.I.H.G.S.X.
0.4659.8At1g77930844128DNAJ heat shock N-terminal domain-containing proteinF:heat shock protein binding;P:protein folding;C:chloroplast;BOMFPAVO.I.H.G.S.X.
0.4659.8At5g19855832106unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPOO.I.H.G.S.X.
0.4659.8At1g19740838563ATP-dependent protease La (LON) domain-containing proteinF:ATP-dependent peptidase activity;P:ATP-dependent proteolysis;C:chloroplast;OBMPFO.I.H.G.S.X.
0.4659.8At5g11840831057unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;OBPO.I.H.G.S.X.
0.4558.3At1g02475839236-F:molecular_function unknown;P:biological_process unknown;C:chloroplast;BOPO.I.H.G.S.X.
0.4558.3At3g02730821260TRXF1 (THIOREDOXIN F-TYPE 1)F:enzyme activator activity;P:positive regulation of catalytic activity;C:chloroplast, chloroplast stroma;BOMPFAVO.I.H.G.S.X.
0.4558.3At1g75460843882ATP-dependent protease La (LON) domain-containing proteinF:ATP-dependent peptidase activity;P:ATP-dependent proteolysis;C:chloroplast;OBMPFO.I.H.G.S.X.
0.4558.3At2g13360815822AGT (ALANINE:GLYOXYLATE AMINOTRANSFERASE)Encodes a peroxisomal photorespiratory enzyme that catalyzes transamination reactions with multiple substrates. It is involved in photorespiration.O.I.H.G.S.X.
0.4457.2At3g19800821517unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4457.2At3g15360820775TRX-M4 (ARABIDOPSIS THIOREDOXIN M-TYPE 4)encodes a prokaryotic thioredoxinO.I.H.G.S.X.
0.4457.2At1g29700839847unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;OBPFO.I.H.G.S.X.
0.4355.3At3g51420824305SSL4 (STRICTOSIDINE SYNTHASE-LIKE 4)F:strictosidine synthase activity;P:alkaloid biosynthetic process, biosynthetic process;C:endomembrane system;BPMOFAO.I.H.G.S.X.
0.4355.3At4g27990828912YGGT family proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast, chloroplast envelope;BOPO.I.H.G.S.X.
0.4355.3At3g23400821921plastid-lipid associated protein PAP / fibrillin family proteinF:structural molecule activity, transporter activity, binding;P:transport;C:in 8 components;PBOO.I.H.G.S.X.
0.4355.3At3g27925822416DEGP1 (DegP protease 1)Encodes a DegP protease; nuclear gene encoding chloroplast-targeted protease that can degrade two lumenal proteins, plastocyanin and OE33, suggesting a role as a general-purpose protease in the thylakoid lumen. Involved in the degradation of D1 protein of PS II, hence participating in the repair of PS II damages caused by photoinhibition.O.I.H.G.S.X.
0.4253.9At1g51400841564photosystem II 5 kD proteinF:molecular_function unknown;P:response to UV-B, response to wounding, response to ozone;C:chloroplast thylakoid membrane, chloroplast photosystem II, chloroplast thylakoid lumen;PO.I.H.G.S.X.
0.4253.9At5g19940832116plastid-lipid associated protein PAP-related / fibrillin-relatedF:structural molecule activity;P:biological_process unknown;C:chloroplast, chloroplast envelope;PBOO.I.H.G.S.X.
0.4152.4At4g27390828847unknown proteinF:unknown;P:biological_process unknown;C:chloroplast;BPO.I.H.G.S.X.
0.4152.4At4g37200829874HCF164Encodes thioredoxin-like protein with disulfide reductase activity that is involved in the biogenesis of the plastid cytochrome b6f complex. Protein is located in the thylakoid membrane with the C-terminal hydrophilic portion, containing the thioredoxin like domain, extending into the thylakoid lumen.O.I.H.G.S.X.
0.4152.4At4g10300826622-F:molecular_function unknown;P:unknown;C:chloroplast;BOPO.I.H.G.S.X.
0.4050.8At5g09660830825PMDH2 (peroxisomal NAD-malate dehydrogenase 2)encodes a microbody NAD-dependent malate dehydrogenase encodes an peroxisomal NAD-malate dehydrogenase that is involved in fatty acid beta-oxidation through providing NAD to the process of converting fatty acyl CoA to acetyl CoA.O.I.H.G.S.X.
0.4050.8At1g76080843940CDSP32 (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.
0.3948.4At1g79040844245PSBR (photosystem II subunit R)Encodes for the 10 kDa PsbR subunit of photosystem II (PSII). This subunit appears to be involved in the stable assembly of PSII, particularly that of the oxygen-evolving complex subunit PsbP. Mutants defective in this gene have reduced amounts of subunits PsbP and PsbQ in PSII. In turn, assembly of PsbR is dependent on the presence of PsbJ.O.I.H.G.S.X.
0.3948.4At1g043508395422-oxoglutarate-dependent dioxygenase, putativeencodes a protein whose sequence is similar to 2-oxoglutarate-dependent dioxygenaseO.I.H.G.S.X.
0.3948.4At2g31040817656ATP synthase protein I -relatedF:hydrogen ion transmembrane transporter activity;P:ATP synthesis coupled proton transport;C:proton-transporting ATP synthase complex, coupling factor F(o), chloroplast;BPOVO.I.H.G.S.X.
0.3948.4At4g05180825866PSBQ-2Encodes the PsbQ subunit of the oxygen evolving complex of photosystem II.O.I.H.G.S.X.
0.3948.4At2g21960816732unknown proteinF:unknown;P:unknown;C:chloroplast;PBOO.I.H.G.S.X.
0.3948.4At1g29390839814COR314-TM2encodes a protein similar to the cold acclimation protein WCOR413 in wheat. Possibly targeted to thylakoid membrane.O.I.H.G.S.X.
0.3948.4At5g64040836525PSANEncodes the only subunit of photosystem I located entirely in the thylakoid lumen. May be involved in the interaction between plastocyanin and the photosystem I complex.O.I.H.G.S.X.
0.3846.7At4g31530829280binding / catalyticF:binding, catalytic activity;P:metabolic process;C:chloroplast stroma, chloroplast, chloroplast envelope;BOPMFAO.I.H.G.S.X.
0.3846.7At5g03880831679electron carrierF:electron carrier activity;P:cell redox homeostasis;C:chloroplast thylakoid membrane, chloroplast;BOPAFMO.I.H.G.S.X.
0.3846.7At4g25650828670ACD1-LIKE (ACD1-LIKE)Similar to ACD1. Leaves of antisense ACD1-like plants turn yellow in darkness like wild-type whereas antisense ACD1 plants remain dark after five days of dark treatment.O.I.H.G.S.X.
0.3846.7At1g54520841894unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPOMO.I.H.G.S.X.
0.3846.7At1g61520842446LHCA3PSI type III chlorophyll a/b-binding protein (Lhca3*1)O.I.H.G.S.X.
0.3846.7At4g32260829359ATP synthase familyF:hydrogen ion transmembrane transporter activity;P:defense response to bacterium;C:thylakoid, chloroplast thylakoid membrane, chloroplast, membrane, chloroplast envelope;BOPMAFVO.I.H.G.S.X.
0.3846.7At5g46110834652APE2 (ACCLIMATION OF PHOTOSYNTHESIS TO ENVIRONMENT 2)mutant has Altered acclimation responses; Chloroplast Triose Phosphate TranslocatorO.I.H.G.S.X.
0.3846.7At1g50020841426unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast thylakoid membrane, chloroplast;PO.I.H.G.S.X.
0.3745.0At4g22890828388PGR5-LIKE AEncodes PGRL1A, a transmembrane protein present in thylakoids. PGRL1A has a highly homologous isoform PGRL1B encoded by At4g11960. Plants lacking PGRL1 show perturbation of cyclic electron flow, similar to PGR5-deficient plants. PGRL1 and PGR5 interact physically and associate with PSI (photosystem I).O.I.H.G.S.X.
0.3745.0At4g29070829028-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3745.0At3g47470823901LHCA4 (LIGHT-HARVESTING CHLOROPHYLL-PROTEIN COMPLEX I SUBUNIT A4)Encodes a chlorophyll a/b-binding protein that is more similar to the PSI Cab proteins than the PSII cab proteins. The predicted protein is about 20 amino acids shorter than most known Cab proteins.O.I.H.G.S.X.
0.3643.6At3g16140820859PSAH-1 (photosystem I subunit H-1)Encodes subunit H of photosystem I reaction center subunit VI.O.I.H.G.S.X.
0.3643.6At3g50685824232unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;POO.I.H.G.S.X.
0.3643.6At1g31170840004SRX (SULFIREDOXIN)encodes a cysteine-sulfinic acid reductase (sulfiredoxin - EC 1.8.98.2) capable of reducing overoxidized plastidic 2-Cys-Prx involved in peroxide detoxification and response to oxidative stressO.I.H.G.S.X.
0.3643.6At5g19540832074unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;POBO.I.H.G.S.X.
0.3643.6At1g54780841919thylakoid lumen 18.3 kDa proteinF:molecular_function unknown;P:biological_process unknown;C:thylakoid, thylakoid lumen, chloroplast thylakoid membrane, chloroplast thylakoid lumen, chloroplast;BPOMO.I.H.G.S.X.
0.3643.6At4g28750828996PSAE-1 (PSA E1 KNOCKOUT)mutant has Decreased effective quantum yield of photosystem II; Pale green plants; Reduced growth rate; Subunit E of Photosystem IO.I.H.G.S.X.
0.3643.6At5g43850834407ARD4F:acireductone dioxygenase [iron(II)-requiring] activity, metal ion binding;P:methionine salvage;C:cellular_component unknown;PBMFOO.I.H.G.S.X.
0.3541.6At1g767308440075-formyltetrahydrofolate cyclo-ligase family proteinF:catalytic activity, ATP binding, 5-formyltetrahydrofolate cyclo-ligase activity;P:folic acid and derivative biosynthetic process, metabolic process;C:chloroplast;MBAOPFO.I.H.G.S.X.
0.3541.6At2g29360817485tropinone reductase, putative / tropine dehydrogenase, putativeF:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:cellular_component unknown;BOMFPAVO.I.H.G.S.X.
0.3541.6At1g08380837358PSAO (photosystem I subunit O)Encodes subunit O of photosystem I.O.I.H.G.S.X.
0.3541.6At4g12800826892PSAL (photosystem I subunit L)Encodes subunit L of photosystem I reaction center.O.I.H.G.S.X.
0.3541.6At2g26500817191cytochrome b6f complex subunit (petM), putativeF:plastoquinol-plastocyanin reductase activity;P:unknown;C:chloroplast thylakoid membrane;PO.I.H.G.S.X.
0.3541.6At2g46820819295PSI-P (PHOTOSYSTEM I P SUBUNIT)Encodes the P subunit of Photosystem I. About 25% of the TMP14 pool appeared to be phosphorylated, and this ratio is not affected by light. Contains seven phosphorylation sites on threonine residue and chloroplast targeting signal. Located in the proximity of PSI-L, -H and -O subunits.O.I.H.G.S.X.
0.3541.6At4g04640825797ATPC1One of two genes (with ATPC2) encoding the gamma subunit of Arabidopsis chloroplast ATP synthase.O.I.H.G.S.X.
0.3541.6At3g26580822266-F:unknown;P:biological_process unknown;C:chloroplast thylakoid membrane;MOFPBVAO.I.H.G.S.X.
0.3541.6At5g66570836789PSBO1 (PS II OXYGEN-EVOLVING COMPLEX 1)Encodes a protein which is an extrinsic subunit of photosystem II and which has been proposed to play a central role in stabilization of the catalytic manganese cluster. In Arabidopsis thaliana the PsbO proteins are encoded by two genes: psbO1 and psbO2. PsbO1 is the major isoform in the wild-type.O.I.H.G.S.X.
0.3439.8At4g03280827996PETC (PHOTOSYNTHETIC ELECTRON TRANSFER C)Encodes the Rieske FeS center of cytochrome b6f complex. Gene is expressed in shoot but not in root. Mutant has reduced electron transport at saturating light intensities and Q-cycle activity is hypersensitive to acidification of the thylakoid lumen.O.I.H.G.S.X.
0.3439.8At1g71480843489nuclear transport factor 2 (NTF2) family proteinF:protein transporter activity;P:transport, protein import into nucleus;C:chloroplast thylakoid membrane, nucleus, intracellular, chloroplast;PBOO.I.H.G.S.X.
0.3439.8At1g55670842016PSAG (PHOTOSYSTEM I SUBUNIT G)Encodes subunit G of photosystem I, an 11-kDa membrane protein that plays an important role in electron transport between plastocyanin and PSI and is involved in the stability of the PSI complex. PSI-G subunit is bound to PSI-B and is in contact with Lhca1. The protein inserts into thylakoids by a direct or "spontaneous" pathway that does not involve the activities of any known chloroplast protein-targeting machinery. PSI-G appears to be directly or indirectly involved in the interaction between Photosystem I and plastocyanin.O.I.H.G.S.X.
0.3338.1At2g45740819182PEX11Dmember of the peroxin11 (PEX11) gene family, integral to peroxisome membrane, controls peroxisome proliferation.O.I.H.G.S.X.
0.3338.1At5g07020830593proline-rich family proteinF:molecular_function unknown;P:biological_process unknown;C:thylakoid, chloroplast thylakoid membrane, chloroplast;PMFVOO.I.H.G.S.X.
0.3338.1At5g20380832160PHT4Encodes an inorganic phosphate transporter (PHT4;5).O.I.H.G.S.X.
0.3235.7At1g06680837178PSBP-1 (PHOTOSYSTEM II SUBUNIT P-1)Encodes a 23 kD extrinsic protein that is part of photosystem II and participates in the regulation of oxygen evolution.O.I.H.G.S.X.
0.3235.7At4g28025828917unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast thylakoid membrane;PO.I.H.G.S.X.
0.3235.7At4g17840827507unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;OMFPBVO.I.H.G.S.X.
0.3133.8At4g28030828918GCN5-related N-acetyltransferase (GNAT) family proteinF:N-acetyltransferase activity;P:metabolic process;C:chloroplast;BPOAO.I.H.G.S.X.
0.3133.8At2g30950817646VAR2 (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.
0.3133.8At1g10500837590ATCPISCA (chloroplast-localized IscA-like protein)Involved in chloroplast Fe-S cluster assembly. Located in the chloroplast stroma. Expressed preferentially in green tissues.O.I.H.G.S.X.
0.3133.8At2g47400819353CP12-1CP12-1 encodes a small peptide found in the chloroplast stroma. It belongs to the CP12 gene family thought to be involved in the formation of a supramolecular complex with glyceraldehyde-3-phosphate dehydrogenase (GAPDH) and phosphoribulokinase (PRK) embedded in the Calvin cycle. The annotation of this gene is based on article 32494.O.I.H.G.S.X.
0.2930.3At1g67280843048lactoylglutathione 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.
0.2930.3At1g65260842833PTAC4 (PLASTID TRANSCRIPTIONALLY ACTIVE4)F:unknown;P:biological_process unknown;C:in 8 components;BOMVFPAO.I.H.G.S.X.
0.2830.3At3g61080825280fructosamine kinase family proteinF:kinase activity;P:biological_process unknown;C:mitochondrion, chloroplast;BOMFPAO.I.H.G.S.X.
0.2726.2At4g01150828181unknown proteinF:molecular_function unknown;P:biological_process unknown;C:thylakoid, chloroplast thylakoid membrane, chloroplast, plastoglobule, chloroplast envelope;PBOO.I.H.G.S.X.

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Oryza_sativa
Populus_trichocarpa
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