CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At1g13830

Gene name beta-1,3-glucanase-related

Module size 5 genes

NF 0.53

%ile 73.8

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
1.00 100.0 1.00 At1g13830 837944 beta-1,3-glucanase-related F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PBMOFVA O.I. H.G. S.X.
0.86 93.1 0.85 At5g48290 834882 heavy-metal-associated domain-containing protein F:metal ion binding;P:metal ion transport;C:cellular_component unknown;POBF O.I. H.G. S.X.
0.53 68.6 0.83 At4g21230 827872 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 0.84 At4g15500 827222 UGT84A4 Encodes a protein that might have sinapic acid:UDP-glucose glucosyltransferase activity. O.I. H.G. S.X.
0.22 17.5 0.83 At3g58710 825040 WRKY69 member of WRKY Transcription Factor; Group II-e O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
1.00	100.0	1.00	At1g13830	837944	beta-1,3-glucanase-related	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PBMOFVA	O.I.	H.G.	S.X.
0.86	93.1	0.85	At5g48290	834882	heavy-metal-associated domain-containing protein	F:metal ion binding;P:metal ion transport;C:cellular_component unknown;POBF	O.I.	H.G.	S.X.
0.53	68.6	0.83	At4g21230	827872	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	0.84	At4g15500	827222	UGT84A4	Encodes a protein that might have sinapic acid:UDP-glucose glucosyltransferase activity.	O.I.	H.G.	S.X.
0.22	17.5	0.83	At3g58710	825040	WRKY69	member of WRKY Transcription Factor; Group II-e	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
227.8 100.0 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
66.7 99.8 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
54.5 99.8 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
52.1 99.8 GSM133860 Beynon_1-3-cat-SpikeMix3_Rep1_ATH1 GSE5739 Comparison of CATMA, Affymetrix and Agilent arrays
46.4 99.8 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
40.5 99.8 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
38.9 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.8 99.7 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.6 99.7 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
31.9 99.7 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.4 99.7 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
30.3 99.7 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
30.1 99.7 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
29.5 99.7 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.7 99.7 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.5 99.7 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.4 99.7 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
25.5 99.7 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
25.2 99.6 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.0 99.6 GSM133969 Birnbaum_1-20_LRC-2_Rep2_ATH1 GSE5749 A gene expression map of the Arabidopsis root
23.9 99.6 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
23.8 99.6 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
21.8 99.6 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
20.4 99.6 GSM226552 Slice10JW GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
20.2 99.6 E-MEXP-509-raw-cel-829148561
19.4 99.6 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
19.3 99.6 GSM258004 LMPC-derived phloem_3 GSE10247 Transcriptome analysis of the Arabidopsis phloem
19.1 99.6 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
17.8 99.5 GSM133859 Beynon_1-2-cat-SpikeMix2_Rep1_ATH1 GSE5739 Comparison of CATMA, Affymetrix and Agilent arrays
17.1 99.5 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
15.3 99.4 GSM133968 Birnbaum_1-19_LRC-1_Rep1_ATH1 GSE5749 A gene expression map of the Arabidopsis root
14.1 99.4 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.7 99.4 E-NASC-76-raw-cel-1359878976
13.6 99.4 GSM265432 Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 1 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
13.3 99.4 GSM184837 Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 7 GSE7639 Expression analysis of root developmental zones after treatment with salt
12.9 99.3 E-MEXP-285-raw-cel-440783213
12.8 99.3 GSM265433 Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 2 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
12.6 99.3 E-NASC-76-raw-cel-1359879158
12.2 99.3 GSM147964 WT Globular Stage Seed 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
12.1 99.3 GSM265425 Arabidopsis, root, longitudinal zone 4, standard conditions, rep 2 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
11.1 99.2 GSM184838 Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 8 GSE7639 Expression analysis of root developmental zones after treatment with salt
11.0 99.2 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
10.9 99.2 E-MEXP-509-raw-cel-829148597
10.2 99.2 GSM179960 Arabidopsis roots, ethylene treatment, replica 1 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings
10.1 99.2 GSM147963 WT Globular Stage Seed 1 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
10.1 99.2 GSM226551 Slice9JW GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
10.1 99.2 E-MEXP-509-raw-cel-829148420
10.1 99.2 E-NASC-76-raw-cel-1359879106
9.9 99.1 GSM265424 Arabidopsis, root, longitudinal zone 4, standard conditions, rep 1 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
9.9 99.1 E-MEXP-475-raw-cel-680982377
9.6 99.1 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
9.4 99.1 E-NASC-76-raw-cel-1359878951
9.3 99.1 GSM179972 Arabidopsis roots, mock treatment, replica 2 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings
8.8 99.0 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
8.7 99.0 E-NASC-76-raw-cel-1359878900
8.6 99.0 GSM134202 Murray_3-1_D1-GROWTH_Rep1_ATH1 GSE5750 Growth of suspension-cultured cells
8.6 99.0 E-MEXP-509-raw-cel-829148703

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
227.8	100.0	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
66.7	99.8	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
54.5	99.8	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
52.1	99.8	GSM133860	Beynon_1-3-cat-SpikeMix3_Rep1_ATH1	GSE5739	Comparison of CATMA, Affymetrix and Agilent arrays
46.4	99.8	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
40.5	99.8	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
38.9	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.8	99.7	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.6	99.7	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
31.9	99.7	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.4	99.7	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
30.3	99.7	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
30.1	99.7	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
29.5	99.7	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.7	99.7	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.5	99.7	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.4	99.7	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
25.5	99.7	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
25.2	99.6	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.0	99.6	GSM133969	Birnbaum_1-20_LRC-2_Rep2_ATH1	GSE5749	A gene expression map of the Arabidopsis root
23.9	99.6	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
23.8	99.6	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
21.8	99.6	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
20.4	99.6	GSM226552	Slice10JW	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
20.2	99.6	E-MEXP-509-raw-cel-829148561
19.4	99.6	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
19.3	99.6	GSM258004	LMPC-derived phloem_3	GSE10247	Transcriptome analysis of the Arabidopsis phloem
19.1	99.6	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
17.8	99.5	GSM133859	Beynon_1-2-cat-SpikeMix2_Rep1_ATH1	GSE5739	Comparison of CATMA, Affymetrix and Agilent arrays
17.1	99.5	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
15.3	99.4	GSM133968	Birnbaum_1-19_LRC-1_Rep1_ATH1	GSE5749	A gene expression map of the Arabidopsis root
14.1	99.4	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.7	99.4	E-NASC-76-raw-cel-1359878976
13.6	99.4	GSM265432	Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 1	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
13.3	99.4	GSM184837	Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 7	GSE7639	Expression analysis of root developmental zones after treatment with salt
12.9	99.3	E-MEXP-285-raw-cel-440783213
12.8	99.3	GSM265433	Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 2	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
12.6	99.3	E-NASC-76-raw-cel-1359879158
12.2	99.3	GSM147964	WT Globular Stage Seed 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
12.1	99.3	GSM265425	Arabidopsis, root, longitudinal zone 4, standard conditions, rep 2	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
11.1	99.2	GSM184838	Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 8	GSE7639	Expression analysis of root developmental zones after treatment with salt
11.0	99.2	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
10.9	99.2	E-MEXP-509-raw-cel-829148597
10.2	99.2	GSM179960	Arabidopsis roots, ethylene treatment, replica 1	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings
10.1	99.2	GSM147963	WT Globular Stage Seed 1	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
10.1	99.2	GSM226551	Slice9JW	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
10.1	99.2	E-MEXP-509-raw-cel-829148420
10.1	99.2	E-NASC-76-raw-cel-1359879106
9.9	99.1	GSM265424	Arabidopsis, root, longitudinal zone 4, standard conditions, rep 1	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
9.9	99.1	E-MEXP-475-raw-cel-680982377
9.6	99.1	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
9.4	99.1	E-NASC-76-raw-cel-1359878951
9.3	99.1	GSM179972	Arabidopsis roots, mock treatment, replica 2	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings
8.8	99.0	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
8.7	99.0	E-NASC-76-raw-cel-1359878900
8.6	99.0	GSM134202	Murray_3-1_D1-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells
8.6	99.0	E-MEXP-509-raw-cel-829148703

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.020 1 GO:0030001 The directed movement of metal ions, any metal ion with an electric charge, into, out of, within or between cells.

SF	Genes	GO ID	Process Name	Link to AmiGO
0.020	1	GO:0030001	The directed movement of metal ions, any metal ion with an electric charge, into, out of, within or between cells.

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

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Gene ID	At1g13830
Gene name	beta-1,3-glucanase-related
Module size	5 genes
NF	0.53
%ile	73.8

Co-expression analysis

Gene ID At1g13830 Gene name beta-1,3-glucanase-related Module size 5 genes NF 0.53 %ile 73.8

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

SFGenesGO IDProcess NameLink to AmiGO0.0201GO:0030001The directed movement of metal ions, any metal ion with an electric charge, into, out of, within or between cells.

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 At1g13830

Gene name beta-1,3-glucanase-related

Module size 5 genes

NF 0.53

%ile 73.8

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

SF Genes GO ID Process Name Link to AmiGO
0.020 1 GO:0030001 The directed movement of metal ions, any metal ion with an electric charge, into, out of, within or between cells.

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