Co-expression analysis

Gene ID At5g13320
Gene name PBS3 (AVRPPHB SUSCEPTIBLE 3)
Module size 8 genes
NF 0.42
%ile 58.5



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
0.2726.21.00At5g13320831173PBS3 (AVRPPHB SUSCEPTIBLE 3)Encodes PBS3 (avrPphB susceptible), also known as GDG1 (GH3-Like Defense Gene 1), WIN3 (HopW1-1-Interacting 3). Involved in disease-resistance signaling pathway. Required for accumulation of salicylic acid, activation of defense responses and resistance to Pseudomonas syringae. Expression detected in cotyledons, true leaves, hypocotyls and occasionally in some parts of roots from 10-day-old seedlings. No expression was detected in root, stem, rosette or cauline leaves of mature 4- to 5-week-old plants.O.I.H.G.S.X.
0.6781.60.66At1g57650842141-F:unknown;P:defense response;C:cellular_component unknown;PMBOFAVO.I.H.G.S.X.
0.6176.70.62At3g486503769688-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.6075.70.62At3g28890822523AtRLP43 (Receptor Like Protein 43)F:protein binding, kinase activity;P:signal transduction;C:endomembrane system;PMOBFAVO.I.H.G.S.X.
0.5570.60.61At3g44350823560anac061 (Arabidopsis NAC domain containing protein 61)F:transcription factor activity;P:multicellular organismal development, response to chitin, regulation of transcription;C:cellular_component unknown;PO.I.H.G.S.X.
0.5065.30.67At5g24540832525BGLU31 (BETA GLUCOSIDASE 31)F:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:response to other organism;C:endomembrane system;BOPMFAO.I.H.G.S.X.
0.3133.80.73At4g04490825779protein kinase family proteinF:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVAO.I.H.G.S.X.
0.2930.30.85At1g74710843810isochorismate synthase 1 (ICS1) / isochorismate mutaseEncodes a protein with isochorismate synthase activity. Mutants fail to accumulate salicylic acid. Its function may be redundant with that of ICS2 (AT1G18870).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
250.1100.0GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
118.499.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
117.499.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
95.099.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
74.199.9GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
68.399.9GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
65.699.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
64.499.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
64.399.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
63.599.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
62.299.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
61.199.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
60.699.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
59.699.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
58.999.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
58.899.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
57.599.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
57.399.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
55.199.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
52.499.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
51.399.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
47.899.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.199.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.499.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.199.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
27.299.7GSM266668Arabidopsis, root cells, columella root cap, -Fe, replicate 3GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
22.499.6GSM266667Arabidopsis, root cells, columella root cap, -Fe, replicate 2GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
20.599.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.999.5GSM270870Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
17.799.5GSM270868Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
16.299.5GSM133963Fukuda_1-8_6B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
15.899.5GSM133962Fukuda_1-7_6A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
15.499.5GSM184912Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
14.599.4GSM133964Fukuda_1-9_8A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
14.499.4GSM133965Fukuda_1-10_8B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
14.299.4GSM133966Fukuda_1-11_10A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
13.599.4GSM184894Arabidopsis, root cells, columella root cap, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
13.599.4GSM133967Fukuda_1-12_10B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
12.299.3GSM270865Arabidopsis cell culture, 4 h_control_rep3GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
12.099.3GSM67087Arabidopsis_Stigma03GSE3056Arabidopsis Pollination StudyLink to GEO
11.899.3E-ATMX-35-raw-cel-1574334832
10.999.2GSM266666Arabidopsis, root cells, columella root cap, -Fe, replicate 1GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
10.299.2GSM67086Arabidopsis_Stigma02GSE3056Arabidopsis Pollination StudyLink to GEO
10.299.2GSM133961Fukuda_1-6_4B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
9.699.1GSM131453AtGen_6-9321_Heatstress-Roots-3.0h_Rep1GSE5628AtGenExpress: Stress Treatments (Heat stress)Link to GEO
9.199.1GSM133960Fukuda_1-5_4A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
8.999.0GSM270814Arabidopsis cell culture, 4 h_control_rep1GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
8.899.0GSM131454AtGen_6-9322_Heatstress-Roots-3.0h_Rep2GSE5628AtGenExpress: Stress Treatments (Heat stress)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2221GO:0016046The series of events in which a stimulus from a fungus is received and converted into a molecular signal.Link to AmiGO
0.2221GO:0018874The chemical reactions and pathways involving benzoate, the anion of benzoic acid (benzenecarboxylic acid), a fungistatic compound widely used as a food preservative; it is conjugated to glycine in the liver and excreted as hippuric acid.Link to AmiGO
0.1431GO:0009697The chemical reactions and pathways resulting in the formation of salicylic acid (2-hydroxybenzoic acid), a derivative of benzoic acid.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.061100130Ubiquinone and other terpenoid-quinone biosynthesisLink to KEGG PATHWAY
0.008101061Biosynthesis of phenylpropanoidsLink to KEGG PATHWAY
0.006101070Biosynthesis of plant hormonesLink 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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