Co-expression analysis

Gene ID At3g27200
Gene name plastocyanin-like domain-containing protein
Module size 21 genes
NF 0.57
%ile 79.1



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
0.5974.71.00At3g27200822339plastocyanin-like domain-containing proteinF:electron carrier activity, copper ion binding;P:unknown;C:anchored to membrane;POBMFO.I.H.G.S.X.
0.7888.60.72At5g01360830298-F:unknown;P:unknown;C:unknown;PMFO.I.H.G.S.X.
0.7486.10.71At5g40020833999pathogenesis-related thaumatin family proteinF:molecular_function unknown;P:response to other organism;C:endomembrane system;PFMBOO.I.H.G.S.X.
0.7083.50.72At5g60720836193unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;POBMO.I.H.G.S.X.
0.6982.90.77At1g20850838677XCP2 (xylem cysteine peptidase 2)F:peptidase activity, cysteine-type peptidase activity;P:proteolysis, developmental programmed cell death;C:cell wall;MOPVBAFO.I.H.G.S.X.
0.6882.20.66At5g60020836124LAC17 (laccase 17)putative laccase, a member of laccase family of genes (17 members in Arabidopsis).O.I.H.G.S.X.
0.6579.60.70At1g54790841920GDSL-motif lipase/hydrolase family proteinF:hydrolase activity, acting on ester bonds, carboxylesterase activity;P:lipid metabolic process;C:endomembrane system;PBFOMO.I.H.G.S.X.
0.6579.60.65At4g08160826365glycosyl hydrolase family 10 protein / carbohydrate-binding domain-containing proteinEncodes a putative glycosyl hydrolase family 10 protein (xylanase).O.I.H.G.S.X.
0.5974.70.68At5g51890835264peroxidaseencodes peroxidase involved in the lignification of tracheary elements (TE) in rootsO.I.H.G.S.X.
0.5873.80.64At5g12870831127MYB46 (MYB DOMAIN PROTEIN 46)Member of the R2R3 factor gene family.O.I.H.G.S.X.
0.5673.00.67At5g01930831699(1-4)-beta-mannan endohydrolase, putativeF:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;PFBOAO.I.H.G.S.X.
0.5673.00.67At1g58370842206RXF12Encodes a protein with xylanase activity.O.I.H.G.S.X.
0.5570.60.62At5g19870832108unknown proteinF:unknown;P:unknown;C:endomembrane system;MPO.I.H.G.S.X.
0.5469.50.69At1g47410841146unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5469.50.67At2g37090818285IRX9 (IRREGULAR XYLEM 9)The IRX9 gene encodes a putative family 43 glycosyl transferase. It was coordinately expressed with the cellulose synthase subunits during secondary cell wall formation. Cell wall analysis revealed a decrease in the abundance of xylan in the irx9 mutant, indicating that IRX9 is required for xylan synthesis. Mutants have irregular xylem phenotype suggesting a role in secondary cell wall biosynthesis.O.I.H.G.S.X.
0.5065.30.63At1g79620844301leucine-rich repeat transmembrane protein kinase, putativeF:protein serine/threonine kinase activity, kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:endomembrane system;MPOBFVAO.I.H.G.S.X.
0.4862.50.63At5g26330832702plastocyanin-like domain-containing protein / mavicyanin, putativeF:electron carrier activity, copper ion binding;P:unknown;C:anchored to membrane;PFO.I.H.G.S.X.
0.4761.20.62At1g05310837030pectinesterase family proteinF:pectinesterase activity;P:cell wall modification;C:endomembrane system, cell wall, plant-type cell wall;MPOBFVAO.I.H.G.S.X.
0.4761.20.67At4g18780827612IRX1 (IRREGULAR XYLEM 1)Encodes a member of the cellulose synthase family involved in secondary cell wall biosynthesis. Mutants have abnormal xylem formation, reduced cellulose content, and enhanced drought and osmotic stress tolerance. Mediates resistance towards bacterial pathogens via ABA. Confers resistance towards bacterial and fungal pathogens, independent of salicylic acid, ethylene and jasmonate signaling.O.I.H.G.S.X.
0.4253.90.65At3g62020825375GLP10 (GERMIN-LIKE PROTEIN 10)germin-like protein (GLP10)O.I.H.G.S.X.
0.4253.90.67At1g08340837354rac GTPase activating protein, putativeF:Rac GTPase activator activity;P:signal transduction;C:intracellular;MOFPVBAO.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
95.499.9GSM284395Arabidopsis GPSc1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
91.399.9GSM154507Arabidopsis growing pollen tubes rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
73.699.9GSM154508Arabidopsis growing pollen tubes rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
60.299.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
58.099.8GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
53.599.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
50.699.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.899.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.799.8GSM284396Arabidopsis GPSc2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
45.699.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.999.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.599.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.099.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.499.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.799.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.899.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.699.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.299.8GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
36.699.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.799.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.999.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.999.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.699.7GSM284388Arabidopsis GMPE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
28.499.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.199.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.199.6GSM142906WW002_ATH1_A2-willa-ISOX-REP2GSE6181Assembly of the cell wall pectic matrix.Link to GEO
22.499.6GSM142905WW002_ATH1_A1-willa-CON-REP3GSE6181Assembly of the cell wall pectic matrix.Link to GEO
22.199.6GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
22.099.6GSM142907WW002_ATH1_A2-willa-ISOX-REP3GSE6181Assembly of the cell wall pectic matrix.Link to GEO
21.299.6GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.499.6GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.399.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
19.999.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.299.6GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.899.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.199.4GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.599.4GSM128661Underwood_1-14_Cor-5x10e7-10h_Rep2_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO
14.199.4E-MEXP-807-raw-cel-1173273252
12.599.3GSM133985Birnbaum_1-15_StageIII-4_Rep4_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
12.099.3GSM311291Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
11.299.2GSM67087Arabidopsis_Stigma03GSE3056Arabidopsis Pollination StudyLink to GEO
11.199.2E-MEXP-807-raw-cel-1173273144
10.999.2GSM311293Laser 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
10.499.2GSM265423Arabidopsis, root, longitudinal zone 3, standard conditions, rep 2GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
10.199.2GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.199.2E-MEXP-807-raw-cel-1173273170
9.899.1GSM67086Arabidopsis_Stigma02GSE3056Arabidopsis Pollination StudyLink to GEO
9.599.1GSM239254CaMV::DME stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
9.399.1GSM311282Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
8.899.0GSM311280Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1543GO:0009834The chemical reactions and pathways resulting in the formation of inextensible cellulose and pectin-containing cell walls that are formed between the plasma membrane and primary cell wall after cell expansion is complete. An example of this is found in Arabidopsis thaliana.Link to AmiGO
0.0871GO:0010116Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of abscisic acid.Link to AmiGO
0.0871GO:0010413The chemical reactions and pathways involving xylan, a polymer containing a beta-(1->4)-linked D-xylose backbone decorated with glucuronic acid side units.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.020100360Phenylalanine metabolismLink to KEGG PATHWAY
0.020100680Methane metabolismLink to KEGG PATHWAY
0.016100940Phenylpropanoid biosynthesisLink 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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