Co-expression analysis

Gene ID At4g23650
Gene name CDPK6 (CALCIUM-DEPENDENT PROTEIN KINASE 6)
Module size 6 genes
NF 0.26
%ile 29.3



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
0.2830.31.00At4g23650828465CDPK6 (CALCIUM-DEPENDENT PROTEIN KINASE 6)Encodes calcium dependent protein kinase 3 (CPK3), a member of the Arabidopsis CDPK gene family. CDPKs contain an intrinsic Ca2+-activation domain with four EF hand Ca2+-binding sites. CDPKs protein kinases have been proposed to function in multiple plant signal transduction pathways downstream of [Ca2+]cyt elevations, thus transducing various physiological responses. CPK3 is expressed in both guard cells and mesophyll cells. Functions in guard cell ion channel regulation. ABA and Ca(2+) activation of slow-type anion channels and, interestingly, ABA activation of plasma membrane Ca(2+)-permeable channels were impaired in independent alleles of single and double cpk3cpk6 mutant guard cells. Furthermore, ABA- and Ca(2+)-induced stomatal closing were partially impaired in these cpk3cpk6 mutant alleles. CPK6 is also a member of the Arabidopsis CDPK family.O.I.H.G.S.X.
0.4457.20.92At1g65930842905isocitrate dehydrogenase, putative / NADP+ isocitrate dehydrogenase, putativeF:isocitrate dehydrogenase (NADP+) activity, copper ion binding;P:response to cadmium ion, response to salt stress, metabolic process;C:apoplast, plasma membrane;OBMPFAO.I.H.G.S.X.
0.2726.20.91At3g09300820086ORP3B (OSBP(OXYSTEROL BINDING PROTEIN)-RELATED PROTEIN 3B)F:oxysterol binding;P:steroid metabolic process;C:unknown;MFOPO.I.H.G.S.X.
0.2624.40.91At3g15610820803transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFBOPAO.I.H.G.S.X.
0.1811.40.91At4g01850826987SAM-2 (S-ADENOSYLMETHIONINE SYNTHETASE 2)F:copper ion binding, methionine adenosyltransferase activity;P:one-carbon compound metabolic process, S-adenosylmethionine biosynthetic process;C:nucleolus, cell wall;OBPMFAO.I.H.G.S.X.
0.1710.20.91At5g17770831645ATCBR (ARABIDOPSIS THALIANA NADH:CYTOCHROME B5 REDUCTASE 1)Encodes NADH:cytochrome (Cyt) b5 reductase that displayed strict specificity to NADH for the reduction of a recombinant Cyt b5 (AtB5-A), whereas no Cyt b5 reduction was observed when NADPH was used as the electron donor.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
71.299.9GSM142902WW001_ATH1_A1-WILLA-CONGSE6181Assembly of the cell wall pectic matrix.Link to GEO
50.599.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.699.8GSM134206Murray_3-3_D5-GROWTH_Rep1_ATH1GSE5750Growth of suspension-cultured cellsLink to GEO
47.199.8GSM142904WW002_ATH1_A1-willa-CON-REP2GSE6181Assembly of the cell wall pectic matrix.Link to GEO
46.599.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.699.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.599.8GSM134208Murray_3-4_D7-GROWTH_Rep1_ATH1GSE5750Growth of suspension-cultured cellsLink to GEO
42.499.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.499.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.399.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.099.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.699.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.699.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.799.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.799.7GSM270870Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
28.699.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.899.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.199.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.099.7E-MEXP-791-raw-cel-1122937569
26.099.7GSM270868Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
25.399.6E-MEXP-1797-raw-cel-1669768084
25.099.6E-MEXP-1797-raw-cel-1669768012
24.599.6GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.099.6GSM176879AWP_Control_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
23.699.6E-ATMX-31-raw-cel-1516947916
23.299.6GSM270866Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep1GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
23.099.6E-MEXP-1797-raw-cel-1669767976
22.199.6E-MEXP-1797-raw-cel-1669768057
22.099.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.299.6Cornah_1-15_msc_Rep3_ATH1
20.399.6E-MEXP-791-raw-cel-1122937533
19.499.6E-MEXP-1797-raw-cel-1669768039
17.499.5E-MEXP-1797-raw-cel-1669767949
17.299.5E-MEXP-1797-raw-cel-1669768066
16.699.5E-ATMX-31-raw-cel-1516947882
16.299.5GSM131065Hammond_2-6_pho1mutant_Rep3_ATH1GSE5611Differential gene expression patterns in the phosphate deficient mutant, pho 1Link to GEO
15.399.4E-ATMX-31-raw-cel-1516947899
15.199.4GSM133773Lindsey_1-25_torpedo-meristem_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
14.799.4E-MEXP-1797-raw-cel-1669768048
14.699.4GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
14.699.4E-MEXP-1797-raw-cel-1669767958
14.499.4E-MEXP-791-raw-cel-1122937623
14.399.4E-MEXP-1797-raw-cel-1669768003
14.399.4GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
13.999.4E-MEXP-791-raw-cel-1122937587
13.899.4GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
13.799.4E-MEXP-1797-raw-cel-1669768075
12.999.3E-MEXP-1797-raw-cel-1669767994
12.399.3GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
12.099.3GSM270853Arabidopsis cell culture, 4 h_control_rep2GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
11.999.3E-MEXP-1797-raw-cel-1669768021
11.699.3GSM270814Arabidopsis cell culture, 4 h_control_rep1GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
10.999.2Cornah_1-14_msc_Rep2_ATH1
10.899.2GSM133723McCormac_1-1_wildtype-NFtreated_Rep1_ATH1GSE5726Seedling transcriptome affected by Norflurazon-induced photobleaching of chloroplastsLink to GEO
10.899.2E-MEXP-1797-raw-cel-1669767985
10.899.2E-MEXP-791-raw-cel-1122937551
10.799.2Cornah_1-10_A2-irv_Rep3_ATH1
9.999.1E-MEXP-791-raw-cel-1122937605
9.899.1GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.799.1E-MEXP-1797-raw-cel-1669767940
9.799.1GSM142689MH001_ATH1_A3-grevi-CC3GSE6158Investigating the links between organic acid and carbohydrate regulation of gene expression.Link to GEO
9.399.1GSM142691MH001_ATH1_A5-grevi-AC2GSE6158Investigating the links between organic acid and carbohydrate regulation of gene expression.Link to GEO
9.199.1GSM134774Col-0_5day_-lincomycin_rep2GSE5770col0,gun1,abi4-102, w/wo lincomycinLink to GEO
8.899.0GSM128746Edwards_3-2_fri-flc1_Rep1_ATH1GSE5528Identifying targets of FLC at 27oCLink to GEO
8.899.0E-MEXP-1797-raw-cel-1669768030
8.799.0GSM142694MH001_ATH1_A8-grevi-CT2GSE6158Investigating the links between organic acid and carbohydrate regulation of gene expression.Link to GEO
8.799.0E-MEXP-1797-raw-cel-1669767967

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2501GO:0010359Any process that modulates the frequency, rate or extent of anion channel activity.Link to AmiGO
0.2001GO:0006556The chemical reactions and pathways resulting in the formation of S-adenosylmethionine, S-(5'-adenosyl)-L-methionine, an important intermediate in one-carbon metabolism.Link to AmiGO
0.1541GO:0022900A process whereby a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.034100480Glutathione metabolismLink to KEGG PATHWAY
0.030100020Citrate cycle (TCA cycle)Link to KEGG PATHWAY
0.026100520Amino sugar and nucleotide sugar metabolismLink 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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