CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At5g39030

Gene name protein kinase family protein

Module size 6 genes

NF 0.25

%ile 26.6

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : 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
0.40 50.8 1.00 At5g39030 833895 protein kinase family protein F:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVA O.I. H.G. S.X.
0.44 57.2 0.78 At4g08470 826406 MAPKKK10 member of MEKK subfamily O.I. H.G. S.X.
0.31 33.8 0.79 At5g36930 833662 disease resistance protein (TIR-NBS-LRR class), putative F:transmembrane receptor activity, protein binding, ATP binding;P:signal transduction, defense response, apoptosis, innate immune response;C:intrinsic to membrane;PMBOFAV O.I. H.G. S.X.
0.22 17.5 0.79 At4g13810 827015 AtRLP47 (Receptor Like Protein 47) F:protein binding;P:signal transduction, defense response;C:unknown;PMOBFAV O.I. H.G. S.X.
0.15 7.8 0.78 At4g23260 828425 ATP binding / protein kinase/ protein serine/threonine kinase/ protein tyrosine kinase F:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, ATP binding;P:response to abscisic acid stimulus;C:endomembrane system;MPOBFVA O.I. H.G. S.X.
0.14 6.8 0.80 At2g46430 819251 ATCNGC3 (CYCLIC NUCLEOTIDE GATED CHANNEL 3) cyclic nucleotide gated channel (CNGC4), downstream component of the signaling pathways leading to HR/resistance O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.40	50.8	1.00	At5g39030	833895	protein kinase family protein	F:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVA	O.I.	H.G.	S.X.
0.44	57.2	0.78	At4g08470	826406	MAPKKK10	member of MEKK subfamily	O.I.	H.G.	S.X.
0.31	33.8	0.79	At5g36930	833662	disease resistance protein (TIR-NBS-LRR class), putative	F:transmembrane receptor activity, protein binding, ATP binding;P:signal transduction, defense response, apoptosis, innate immune response;C:intrinsic to membrane;PMBOFAV	O.I.	H.G.	S.X.
0.22	17.5	0.79	At4g13810	827015	AtRLP47 (Receptor Like Protein 47)	F:protein binding;P:signal transduction, defense response;C:unknown;PMOBFAV	O.I.	H.G.	S.X.
0.15	7.8	0.78	At4g23260	828425	ATP binding / protein kinase/ protein serine/threonine kinase/ protein tyrosine kinase	F:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, ATP binding;P:response to abscisic acid stimulus;C:endomembrane system;MPOBFVA	O.I.	H.G.	S.X.
0.14	6.8	0.80	At2g46430	819251	ATCNGC3 (CYCLIC NUCLEOTIDE GATED CHANNEL 3)	cyclic nucleotide gated channel (CNGC4), downstream component of the signaling pathways leading to HR/resistance	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
87.3 99.9 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
74.8 99.9 GSM131450 AtGen_6-9222_Heatstress-Roots-1.0h_Rep2 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
73.9 99.9 GSM131449 AtGen_6-9221_Heatstress-Roots-1.0h_Rep1 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
72.2 99.9 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
63.5 99.8 GSM184556 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
62.8 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
52.9 99.8 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
50.6 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
46.2 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.9 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
43.8 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
43.6 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
42.2 99.8 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
41.8 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.4 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.9 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.6 99.8 GSM184551 Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
40.4 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.9 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
39.1 99.8 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.3 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.5 99.7 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.7 99.6 E-MEXP-1725-raw-cel-1669614634
23.6 99.6 GSM133308 RIKEN-NAKABAYASHI4A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
22.8 99.6 GSM131453 AtGen_6-9321_Heatstress-Roots-3.0h_Rep1 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
19.9 99.6 GSM133307 RIKEN-NAKABAYASHI3A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
19.1 99.6 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
18.8 99.5 GSM133305 RIKEN-NAKABAYASHI2A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
17.7 99.5 GSM133309 RIKEN-NAKABAYASHI4B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
17.3 99.5 GSM133306 RIKEN-NAKABAYASHI2B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
16.2 99.5 GSM133974 Birnbaum_1-4_StageI-1_Rep1_ATH1 GSE5749 A gene expression map of the Arabidopsis root
15.3 99.4 GSM265427 Arabidopsis, root, longitudinal zone 1, -Fe conditions, rep 2 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
15.0 99.4 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
14.8 99.4 E-MEXP-509-raw-cel-829148561
14.3 99.4 GSM133310 RIKEN-NAKABAYASHI5B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
14.1 99.4 GSM131454 AtGen_6-9322_Heatstress-Roots-3.0h_Rep2 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
14.0 99.4 E-MEXP-509-raw-cel-829148525
13.7 99.4 E-MEXP-1725-raw-cel-1669614562
13.2 99.4 GSM133975 Birnbaum_1-5_StageI-2_Rep2_ATH1 GSE5749 A gene expression map of the Arabidopsis root
12.6 99.3 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
12.5 99.3 GSM184912 Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
11.8 99.3 GSM131448 AtGen_6-9212_Heatstress-Shoots-1.0h_Rep2 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
11.0 99.2 E-MEXP-509-raw-cel-829148597
10.8 99.2 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
10.5 99.2 GSM131447 AtGen_6-9211_Heatstress-Shoots-1.0h_Rep1 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
9.7 99.1 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
9.0 99.1 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
8.9 99.0 GSM184893 Arabidopsis, root cells, columella root cap, standard conditions, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
8.9 99.0 E-MEXP-509-raw-cel-829148385
8.8 99.0 GSM265418 Arabidopsis, root, longitudinal zone 1, standard conditions, rep 1 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
87.3	99.9	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
74.8	99.9	GSM131450	AtGen_6-9222_Heatstress-Roots-1.0h_Rep2	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
73.9	99.9	GSM131449	AtGen_6-9221_Heatstress-Roots-1.0h_Rep1	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
72.2	99.9	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
63.5	99.8	GSM184556	Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
62.8	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
52.9	99.8	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
50.6	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
46.2	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.9	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
43.8	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
43.6	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
42.2	99.8	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
41.8	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.4	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.9	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.6	99.8	GSM184551	Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
40.4	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.9	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
39.1	99.8	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.3	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.5	99.7	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.7	99.6	E-MEXP-1725-raw-cel-1669614634
23.6	99.6	GSM133308	RIKEN-NAKABAYASHI4A	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
22.8	99.6	GSM131453	AtGen_6-9321_Heatstress-Roots-3.0h_Rep1	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
19.9	99.6	GSM133307	RIKEN-NAKABAYASHI3A	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
19.1	99.6	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
18.8	99.5	GSM133305	RIKEN-NAKABAYASHI2A	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
17.7	99.5	GSM133309	RIKEN-NAKABAYASHI4B	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
17.3	99.5	GSM133306	RIKEN-NAKABAYASHI2B	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
16.2	99.5	GSM133974	Birnbaum_1-4_StageI-1_Rep1_ATH1	GSE5749	A gene expression map of the Arabidopsis root
15.3	99.4	GSM265427	Arabidopsis, root, longitudinal zone 1, -Fe conditions, rep 2	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
15.0	99.4	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
14.8	99.4	E-MEXP-509-raw-cel-829148561
14.3	99.4	GSM133310	RIKEN-NAKABAYASHI5B	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
14.1	99.4	GSM131454	AtGen_6-9322_Heatstress-Roots-3.0h_Rep2	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
14.0	99.4	E-MEXP-509-raw-cel-829148525
13.7	99.4	E-MEXP-1725-raw-cel-1669614562
13.2	99.4	GSM133975	Birnbaum_1-5_StageI-2_Rep2_ATH1	GSE5749	A gene expression map of the Arabidopsis root
12.6	99.3	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
12.5	99.3	GSM184912	Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
11.8	99.3	GSM131448	AtGen_6-9212_Heatstress-Shoots-1.0h_Rep2	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
11.0	99.2	E-MEXP-509-raw-cel-829148597
10.8	99.2	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
10.5	99.2	GSM131447	AtGen_6-9211_Heatstress-Shoots-1.0h_Rep1	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
9.7	99.1	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
9.0	99.1	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
8.9	99.0	GSM184893	Arabidopsis, root cells, columella root cap, standard conditions, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
8.9	99.0	E-MEXP-509-raw-cel-829148385
8.8	99.0	GSM265418	Arabidopsis, root, longitudinal zone 1, standard conditions, rep 1	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.105 1 GO:0006811 The directed movement of charged atoms or small charged molecules into, out of, within or between cells.
0.015 1 GO:0045087 Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
0.014 1 GO:0006915 A form of programmed cell death that begins when a cell receives internal or external signals that trigger the activity of proteolytic caspases, proceeds through a series of characteristic stages typically including rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), and plasma membrane blebbing (but maintenance of its integrity until the final stages of the process), and ends with the death of the cell.

SF	Genes	GO ID	Process Name
0.105	1	GO:0006811	The directed movement of charged atoms or small charged molecules into, out of, within or between cells.
0.015	1	GO:0045087	Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
0.014	1	GO:0006915	A form of programmed cell death that begins when a cell receives internal or external signals that trigger the activity of proteolytic caspases, proceeds through a series of characteristic stages typically including rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), and plasma membrane blebbing (but maintenance of its integrity until the final stages of the process), and ends with the death of the cell.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG

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

Back to the CoP portal site

Back to the KAGIANA project homepage

Gene ID	At5g39030
Gene name	protein kinase family protein
Module size	6 genes
NF	0.25
%ile	26.6

Co-expression analysis

Gene ID At5g39030 Gene name protein kinase family protein Module size 6 genes NF 0.25 %ile 26.6

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein: VF over 0.50, : over 0.25, : below 0.25

Co-expressed genes

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Biological processes inferred to relate to the module

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG

Inter-species module comparison

Select a plant to compare co-expressed genes between species.Glycine_maxHordeum_vulgareOryza_sativaPopulus_trichocarpaTriticum_aestivumVitis_viniferaZea_mays

Gene ID At5g39030

Gene name protein kinase family protein

Module size 6 genes

NF 0.25

%ile 26.6

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

SF Genes KEGG ID Pathway name Link to KEGG

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays