Co-expression analysis

Gene ID Contig11477_at
Gene name
Homology with ArabidopsisSimilar to At1g79040: PSBR (photosystem II subunit R) (HF=8e-5)
Module size 6 genes
NF 0.55
%ile 76.8

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
0.6380.30.96Contig11477_atContig11477--8e-5At1g79040PSBR (photosystem II subunit R)O.I.H.G.S.X.
0.6784.70.97Contig2343_s_atContig2343--1e+0At5g26010catalytic/ protein serine/threonine phosphataseO.I.H.G.S.X.
0.5066.90.97Contig7360_atContig7360--3e+0At4g19620unknown proteinO.I.H.G.S.X.
0.4458.90.97Contig19949_atContig19949--7e+0At3g02620acyl-(acyl-carrier-protein) desaturase, putative / stearoyl-ACP desaturase, putativeO.I.H.G.S.X.
0.4053.10.97Contig1512_atContig1512--0At5g12250TUB6 (BETA-6 TUBULIN)O.I.H.G.S.X.
0.3647.10.97Contig624_atContig624--3e-3At2g31390pfkB-type carbohydrate kinase family 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
8.398.8GSM440972Stressed awn_Rep1GSE17669Gene expression in the barley spike during drought stressLink to GEO
5.597.6GSM440974Stressed awn_Rep3GSE17669Gene expression in the barley spike during drought stressLink to GEO
5.497.5GSM3634655 mM B(OH)3 treatment (5B) - rep3GSE14521Late response to boron toxicity in barley leavesLink to GEO
5.397.4GSM440973Stressed awn_Rep2GSE17669Gene expression in the barley spike during drought stressLink to GEO
4.997.1GSM238435Embryo 24 h; Seed germination; Rep 2GSE9365Expression data from barley maturing and germinating grainsLink to GEO
4.997.1GSM363461Control (C) - rep2GSE14521Late response to boron toxicity in barley leavesLink to GEO
4.496.6GSM238432Embryo 0 h; Seed germination; Rep 1GSE9365Expression data from barley maturing and germinating grainsLink to GEO
4.396.4GSM238434Embryo 24 h; Seed germination; Rep 1GSE9365Expression data from barley maturing and germinating grainsLink to GEO
3.995.8GSM238433Embryo 0 h; Seed germination; Rep 2GSE9365Expression data from barley maturing and germinating grainsLink to GEO
3.895.7GSM213441Barley seeds control in Hoagland solution for 12hrGSE8618P. aeruginosa virulent factor to barleyLink to GEO

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At1g79040, orthologous to the query gene, Contig11477_at

VF%ileGene IDRepr. IDGene NameFunc.O.I.H.G.S.X.Other DB
0.8793.5At1g79040844245PSBR (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.
0.9697.3At1g30380839918PSAK (photosystem I subunit K)Encodes subunit K of photosystem I reaction center.O.I.H.G.S.X.
0.9597.0At5g66570836789PSBO1 (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.
0.9496.7At4g12800826892PSAL (photosystem I subunit L)Encodes subunit L of photosystem I reaction center.O.I.H.G.S.X.
0.9496.7At4g28750828996PSAE-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.
0.9496.7At5g01530830325chlorophyll A-B binding protein CP29 (LHCB4)F:chlorophyll binding;P:response to blue light, response to red light, response to far red light, photosynthesis;C:in 6 components;POMO.I.H.G.S.X.
0.9496.7At4g02770828183PSAD-1 (photosystem I subunit D-1)Encodes a protein predicted by sequence similarity with spinach PsaD to be photosystem I reaction center subunit II (PsaD1)O.I.H.G.S.X.
0.9396.4At3g54890824654LHCA1Encodes a component of the light harvesting complex associated with photosystem I.O.I.H.G.S.X.
0.9296.0At1g06680837178PSBP-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.
0.9296.0At1g31330840021PSAF (photosystem I subunit F)Encodes subunit F of photosystem I.O.I.H.G.S.X.
0.9296.0At5g46110834652APE2 (ACCLIMATION OF PHOTOSYNTHESIS TO ENVIRONMENT 2)mutant has Altered acclimation responses; Chloroplast Triose Phosphate TranslocatorO.I.H.G.S.X.
0.9195.6At1g61520842446LHCA3PSI type III chlorophyll a/b-binding protein (Lhca3*1)O.I.H.G.S.X.
0.9195.6At1g55670842016PSAG (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.
0.9195.6At5g64040836525PSANEncodes 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.
0.9195.6At4g05180825866PSBQ-2Encodes the PsbQ subunit of the oxygen evolving complex of photosystem II.O.I.H.G.S.X.
0.9195.6At2g06520815210PSBX (photosystem II subunit X)Encodes a protein with sequence similarity to the spinach photosystem II subunit PsbX.O.I.H.G.S.X.
0.9195.6At3g47470823901LHCA4 (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.
0.9095.1At1g20340838622DRT112recombination and DNA-damage resistance protein (DRT112) One of two Arabidopsis plastocyanin genes. Predominant form, expressed 10x higher than PETE1. PETE2 is thought to be post-transcriptionally regulated via copper accumulation and is involved in copper homeostasis.O.I.H.G.S.X.
0.9095.1At1g29910839869CAB3 (CHLOROPHYLL A/B BINDING PROTEIN 3)member of Chlorophyll a/b-binding protein familyO.I.H.G.S.X.
0.9095.1At5g54270835515LHCB3 (LIGHT-HARVESTING CHLOROPHYLL B-BINDING PROTEIN 3)Lhcb3 protein is a component of the main light harvesting chlorophyll a/b-protein complex of Photosystem II (LHC II).O.I.H.G.S.X.
0.8894.0At1g52230841653PSAH2 (PHOTOSYSTEM I SUBUNIT H2)F:molecular_function unknown;P:photosynthesis;C:in 6 components;POO.I.H.G.S.X.
0.8894.0At4g38970830052fructose-bisphosphate aldolase, putativeProtein is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds.O.I.H.G.S.X.
0.8793.5At3g16140820859PSAH-1 (photosystem I subunit H-1)Encodes subunit H of photosystem I reaction center subunit VI.O.I.H.G.S.X.
0.8793.5At4g10340826626LHCB5 (LIGHT HARVESTING COMPLEX OF PHOTOSYSTEM II 5)photosystem II encoding the light-harvesting chlorophyll a/b binding protein CP26 of the antenna system of the photosynthetic apparatusO.I.H.G.S.X.
0.8592.4At1g15820838151LHCB6 (LIGHT HARVESTING COMPLEX PSII SUBUNIT 6)Lhcb6 protein (Lhcb6), light harvesting complex of photosystem II.O.I.H.G.S.X.
0.8491.9At2g39730818558RCA (RUBISCO ACTIVASE)Rubisco activase, a nuclear-encoded chloroplast protein that consists of two isoforms arising from alternative splicing in most plants. Required for the light activation of rubisco.O.I.H.G.S.X.
0.8290.9At1g67740843099PSBYPsbY precursor (psbY) mRNA. This single nuclear gene is imported into the chloroplasts where it is processed into two integral membrane proteins with identical topology (PsbY-1 and PsbY-2). The protein appears to bind manganese but its role is not well understood.O.I.H.G.S.X.
0.7989.1At4g03280827996PETC (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.
0.7989.1At4g04640825797ATPC1One of two genes (with ATPC2) encoding the gamma subunit of Arabidopsis chloroplast ATP synthase.O.I.H.G.S.X.
0.7989.1At2g26500817191cytochrome b6f complex subunit (petM), putativeF:plastoquinol-plastocyanin reductase activity;P:unknown;C:chloroplast thylakoid membrane;PO.I.H.G.S.X.
0.7888.6At3g56940824861CRD1 (COPPER RESPONSE DEFECT 1)Encodes a putative ZIP protein with varying mRNA accumulation in leaves, stems and roots. Has a consensus carboxylate-bridged di-iron binding site.O.I.H.G.S.X.
0.7888.6At3g21055821657PSBTN (photosystem II subunit T)Encodes photosystem II 5 kD protein subunit PSII-T. This is a nuclear-encoded gene (PsbTn) which also has a plastid-encoded paralog (PsbTc).O.I.H.G.S.X.
0.7788.0At3g26650822277GAPA (GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE A SUBUNIT)Encodes one of the two subunits forming the photosynthetic glyceraldehyde-3-phosphate dehydrogenase (GAPDH) and as such a constituent of the supramolecular complex with phosphoribulokinase (PRK) thought to be linked by a small peptide encoded by CP12-2. GapA-1 is coordinately expressed by light with PRK and CP12-2. The enzyme activity, tested in leaf protein extracts dropped significantly after external sucrose treatment for the photosynthetic GAPDH (NADPH-dependent) but not for the cytosolic GAPDH (NADH-dependent).O.I.H.G.S.X.
0.7687.4At4g32260829359ATP 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.
0.7486.1At1g12900837848GAPA-2 (GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE A SUBUNIT 2)F:NAD or NADH binding, glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) activity, binding, glyceraldehyde-3-phosphate dehydrogenase activity, catalytic activity;P:glycolysis, glucose metabolic process, metabolic process;C:apoplast, chloroplast stroma, chloroplast, membrane, chloroplast envelope;BOPFMAO.I.H.G.S.X.
0.7486.1At1g60950842386FED Aencodes a major leaf ferredoxinO.I.H.G.S.X.
0.7385.5At1g54780841919thylakoid 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.
0.6982.9At4g01150828181unknown proteinF:molecular_function unknown;P:biological_process unknown;C:thylakoid, chloroplast thylakoid membrane, chloroplast, plastoglobule, chloroplast envelope;PBOO.I.H.G.S.X.
0.6882.2At2g46820819295PSI-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.
0.6680.1At3g50820824246PSBO2 (PHOTOSYSTEM II SUBUNIT O-2)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. PsbO2 is the minor isoform in the wild-type. Mutants defective in this gene have been shown to be affected in the dephosphorylation of the D1 protein of PSII.O.I.H.G.S.X.

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