Co-expression analysis

Gene ID At3g59220
Gene name PRN (PIRIN)
Module size 34 genes
NF 0.20
%ile 19.1



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
0.6075.71.00At3g59220825091PRN (PIRIN)encodes a cupin-domain containing protein that is similar to pirins which interact with a CCAAT box binding transcription factor. The protein interacts with GPA1 (G protein alpha-subunit) in vitro. Mutants in the gene are affected in germination and early seedling development.O.I.H.G.S.X.
0.3235.70.70At3g62270825400anion exchange family proteinF:anion exchanger activity;P:anion transport;C:integral to membrane, membrane;MFPOBVO.I.H.G.S.X.
0.3032.10.67At5g66690836802UGT72E2UGT72E2 is an UDPG:coniferyl alcohol glucosyltransferase which glucosylates sinapyl- and coniferyl aldehydes as well as sinapyl- and coniferyl alcohol. The enzyme is thought to be involved in lignin metabolism. A knockdown mutant line (72E2KD) was obtained using RNAi silencing. A twofold reduction in coniferyl alcohol 4-O-glucoside and sinapyl alcohol 4-O-glucoside was detected in this line compared to wildtype. In comparison, both knockout and knockdown lines of UGT72E1 and UGT72E3, respectively, failed to display the same reduction in phenylpropanoid 4-O-glucosides.O.I.H.G.S.X.
0.2830.30.67At5g43690834389sulfotransferase family proteinF:sulfotransferase activity;P:biological_process unknown;C:cellular_component unknown;MPOBFO.I.H.G.S.X.
0.2726.20.68At4g18360827563(S)-2-hydroxy-acid oxidase, peroxisomal, putative / glycolate oxidase, putative / short chain alpha-hydroxy acid oxidase, putativeF:glycolate oxidase activity, electron carrier activity, oxidoreductase activity, FMN binding, catalytic activity;P:metabolic process;C:peroxisome;OBFMPAO.I.H.G.S.X.
0.2624.40.68At3g45650823707NAXT1 (NITRATE EXCRETION TRANSPORTER1)Encodes a nitrate efflux transporter NAXT1 (for NITRATE EXCRETION TRANSPORTER1). Localized to the plasma membrane. NAXT1 belongs to a subclass of seven NAXT members from the large NITRATE TRANSPORTER1/PEPTIDE TRANSPORTER family and is mainly expressed in the cortex of mature roots.O.I.H.G.S.X.
0.2522.60.67At2g26290817169ARSK1 (root-specific kinase 1)F:kinase activity;P:response to salt stress, response to water deprivation, response to abscisic acid stimulus;C:unknown;MPOBFVAO.I.H.G.S.X.
0.2522.60.67At2g29480817497ATGSTU2 (ARABIDOPSIS THALIANA GLUTATHIONE S-TRANSFERASE TAU 2)Encodes glutathione transferase belonging to the tau class of GSTs. Naming convention according to Wagner et al. (2002).O.I.H.G.S.X.
0.2522.60.68At3g26470822252-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.2522.60.66At3g14940820723ATPPC3 (PHOSPHOENOLPYRUVATE CARBOXYLASE 3)One of four genes encoding phosphoenolpyruvate carboxylase, its mRNA is most abundantly expressed in roots and siliques.O.I.H.G.S.X.
0.2420.70.66At3g13650820569disease resistance responseF:molecular_function unknown;P:lignan biosynthetic process, defense response;C:endomembrane system;PO.I.H.G.S.X.
0.2319.30.67At5g50760835148auxin-responsive family proteinF:molecular_function unknown;P:response to auxin stimulus;C:unknown;POO.I.H.G.S.X.
0.2319.30.67At2g39110818497protein kinase, putativeF:protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MPOBFVAO.I.H.G.S.X.
0.2319.30.69At5g17330831599GADEncodes one of two isoforms of glutamate decarboxylase.O.I.H.G.S.X.
0.2319.30.69At4g13180826932short-chain dehydrogenase/reductase (SDR) family proteinF:oxidoreductase activity, binding, catalytic activity;P:response to arsenic;C:unknown;BOMFPAVO.I.H.G.S.X.
0.2217.50.64At5g14000831248anac084 (Arabidopsis NAC domain containing protein 84)F:transcription factor activity;P:multicellular organismal development, regulation of transcription;C:cellular_component unknown;PO.I.H.G.S.X.
0.2115.80.65At1g71400843481AtRLP12 (Receptor Like Protein 12)F:protein binding;P:signal transduction, defense response;C:endomembrane system;PMOBFAVO.I.H.G.S.X.
0.2014.40.69At4g23510828451disease resistance protein (TIR class), putativeF:transmembrane receptor activity;P:defense response signaling pathway, resistance gene-dependent, signal transduction, defense response, innate immune response;C:intrinsic to membrane;PBOO.I.H.G.S.X.
0.2014.40.64At1g11580837701PMEPCRA (METHYLESTERASE PCR A)F:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:cell wall, plasma membrane, plant-type cell wall;PBFMOO.I.H.G.S.X.
0.1912.70.64At3g13090820497ATMRP8member of MRP subfamilyO.I.H.G.S.X.
0.1912.70.69At5g37740833752C2 domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;MPFOO.I.H.G.S.X.
0.1912.70.64At3g05360819700AtRLP30 (Receptor Like Protein 30)F:protein binding, kinase activity;P:defense response signaling pathway, resistance gene-independent, response to cyclopentenone, signal transduction, defense response;C:endomembrane system;PMOBFAVO.I.H.G.S.X.
0.1912.70.68At5g06860830577PGIP1 (POLYGALACTURONASE INHIBITING PROTEIN 1)Encodes a polygalacturonase inhibiting protein involved in defense response. PGIPs inhibit the function of cell wall pectin degrading enzymes such as those produced by fungal pathogens. PGIP1 is induced by fungal infection.O.I.H.G.S.X.
0.1811.40.68At5g06300830518carboxy-lyaseF:carboxy-lyase activity;P:metabolic process;C:unknown;BOPFMAO.I.H.G.S.X.
0.1710.20.66At5g22890832353zinc finger (C2H2 type) family proteinF:transcription factor activity;P:response to chitin, regulation of transcription;C:intracellular;MOPFO.I.H.G.S.X.
0.157.80.64At2g35910818164zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVO.I.H.G.S.X.
0.157.80.65At1g14070837967FUT7member of Xyloglucan fucosyltransferase familyO.I.H.G.S.X.
0.146.80.64At1g12160837768flavin-containing monooxygenase family protein / FMO family proteinF:NADP or NADPH binding, monooxygenase activity, FAD binding, flavin-containing monooxygenase activity;P:biological_process unknown;C:cellular_component unknown;BOMFPAO.I.H.G.S.X.
0.146.80.65At5g13750831220ZIFL1 (ZINC INDUCED FACILITATOR-like 1)F:tetracycline:hydrogen antiporter activity;P:response to antibiotic, tetracycline transport;C:integral to membrane;BFOMAPO.I.H.G.S.X.
0.146.80.65At5g092908307883'(2'),5'-bisphosphate nucleotidase, putative / inositol polyphosphate 1-phosphatase, putativeF:3'(2'),5'-bisphosphate nucleotidase activity, inositol or phosphatidylinositol phosphatase activity;P:sulfur metabolic process;C:unknown;BOMFPAO.I.H.G.S.X.
0.146.80.66At5g65210836646TGA1F:transcription factor activity, calmodulin binding, DNA binding;P:defense response to bacterium;C:nucleus;POMO.I.H.G.S.X.
0.124.90.64At1g18910838472protein binding / zinc ion bindingF:protein binding, zinc ion binding;P:unknown;C:unknown;MPOFBVO.I.H.G.S.X.
0.082.30.64At1g01010839580ANAC001 (Arabidopsis NAC domain containing protein 1)F:transcription factor activity;P:multicellular organismal development, regulation of transcription;C:cellular_component unknown;PO.I.H.G.S.X.
0.082.30.70At3g13790820591ATBFRUCT1Encodes a protein with invertase activity.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
51.899.8GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
44.099.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.899.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.699.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.199.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.699.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.499.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.099.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.899.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.499.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.499.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.299.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.399.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.299.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.799.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.599.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.599.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.199.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.899.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.299.6GSM311290Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
20.999.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.599.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.799.5E-MEXP-1138-raw-cel-1432773322
15.099.4GSM311294Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
14.499.4E-MEXP-1138-raw-cel-1432773258
14.499.4E-MEXP-1474-raw-cel-1593932609
13.999.4GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
13.699.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
13.099.4E-MEXP-1474-raw-cel-1593932673
13.099.4GSM133984Birnbaum_1-14_StageIII-3_Rep3_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
12.999.3GSM133985Birnbaum_1-15_StageIII-4_Rep4_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
12.699.3E-MEXP-1474-raw-cel-1593932513
12.499.3GSM133818Yang_1-3_young-pod_Rep2_ATH1GSE5736To identify changes in gene expression during silique senescence in Arabidopsis thalianaLink to GEO
12.299.3GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
12.099.3E-MEXP-1138-raw-cel-1432773290
11.699.3GSM311283Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
11.599.3GSM226554Slice12JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
11.599.3GSM311293Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
11.399.3GSM311289Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
11.099.2GSM311281Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
10.999.2GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
10.999.2E-ATMX-35-raw-cel-1574334816
10.599.2GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.799.1E-MEXP-1474-raw-cel-1593932705
9.299.1GSM184922Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
8.899.0GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0561GO:0010447A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a pH stimulus with pH < 7.Link to AmiGO
0.0561GO:0015904The directed movement of tetracycline into, out of, within or between cells. Tetracycline is a broad spectrum antibiotic that blocks binding of aminoacyl tRNA to the ribosomes of both Gram-positive and Gram-negative organisms (and those of organelles).Link to AmiGO
0.0541GO:0046677A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.053100430Taurine and hypotaurine metabolismLink to KEGG PATHWAY
0.039100410beta-Alanine metabolismLink to KEGG PATHWAY
0.037100980Metabolism of xenobiotics by cytochrome P450Link 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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