CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At2g43860

Gene name polygalacturonase, putative / pectinase, putative

Module size 6 genes

NF 0.28

%ile 33.4

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 At2g43860 818990 polygalacturonase, putative / pectinase, putative F:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMA O.I. H.G. S.X.
0.31 33.8 0.77 At3g52700 824436 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;P O.I. H.G. S.X.
0.29 30.3 0.76 At4g03170 828050 DNA binding F:DNA binding;P:regulation of transcription, DNA-dependent;C:cellular_component unknown;OPMF O.I. H.G. S.X.
0.25 22.6 0.77 At2g04420 814982 nucleic acid binding F:nucleic acid binding;P:biological_process unknown;C:mitochondrion;PBO O.I. H.G. S.X.
0.12 4.9 0.76 At4g23780 828478 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMPBV O.I. H.G. S.X.
0.09 2.8 0.78 At2g14420 3768298 transposable element gene F:unknown;P:unknown;C:unknown 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	At2g43860	818990	polygalacturonase, putative / pectinase, putative	F:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMA	O.I.	H.G.	S.X.
0.31	33.8	0.77	At3g52700	824436	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;P	O.I.	H.G.	S.X.
0.29	30.3	0.76	At4g03170	828050	DNA binding	F:DNA binding;P:regulation of transcription, DNA-dependent;C:cellular_component unknown;OPMF	O.I.	H.G.	S.X.
0.25	22.6	0.77	At2g04420	814982	nucleic acid binding	F:nucleic acid binding;P:biological_process unknown;C:mitochondrion;PBO	O.I.	H.G.	S.X.
0.12	4.9	0.76	At4g23780	828478	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMPBV	O.I.	H.G.	S.X.
0.09	2.8	0.78	At2g14420	3768298	transposable element gene	F:unknown;P:unknown;C:unknown	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
165.5 100.0 GSM131454 AtGen_6-9322_Heatstress-Roots-3.0h_Rep2 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
152.1 99.9 GSM131453 AtGen_6-9321_Heatstress-Roots-3.0h_Rep1 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
80.8 99.9 GSM131451 AtGen_6-9311_Heatstress-Shoots-3.0h_Rep1 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
61.8 99.8 GSM131452 AtGen_6-9312_Heatstress-Shoots-3.0h_Rep2 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
50.1 99.8 GSM133756 Lindsey_1-10_heart-stage-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
42.7 99.8 GSM270870 Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
37.1 99.7 GSM131448 AtGen_6-9212_Heatstress-Shoots-1.0h_Rep2 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
36.0 99.7 GSM270868 Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
31.1 99.7 GSM133774 Lindsey_1-26_torpedo-meristem_Rep2_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
30.8 99.7 GSM131447 AtGen_6-9211_Heatstress-Shoots-1.0h_Rep1 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
27.3 99.7 GSM131450 AtGen_6-9222_Heatstress-Roots-1.0h_Rep2 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
25.5 99.7 GSM131449 AtGen_6-9221_Heatstress-Roots-1.0h_Rep1 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
18.0 99.5 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
16.7 99.5 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.0 99.5 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.0 99.5 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.0 99.4 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.6 99.4 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.5 99.4 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.9 99.4 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.7 99.4 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.5 99.4 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
13.4 99.4 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
13.3 99.4 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.6 99.3 GSM133723 McCormac_1-1_wildtype-NFtreated_Rep1_ATH1 GSE5726 Seedling transcriptome affected by Norflurazon-induced photobleaching of chloroplasts
12.1 99.3 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
12.1 99.3 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.7 99.3 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
11.6 99.3 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
11.4 99.3 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
10.5 99.2 GSM131457 AtGen_6-9821_Heatstress(3h)+1hrecovery-Roots-4.0h_Rep1 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
10.5 99.2 GSM184524 Stele root cells 2hr KCl control treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.4 99.2 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
10.3 99.2 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
9.7 99.1 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
9.7 99.1 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
9.3 99.1 GSM184525 Stele root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.3 99.1 GSM133776 Lindsey_1-1_globular-apical_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
9.3 99.1 GSM184527 Stele root cells 2hr transitory KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.3 99.1 GSM242955 Steroid day 1 (day1D1) GSE9605 Target genes of AGAMOUS during early flower development in Arabidopsis
8.8 99.0 GSM184530 Stele root cells 2hr continuous KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
8.8 99.0 GSM242959 Steroid day 3 (day3D1) GSE9605 Target genes of AGAMOUS during early flower development in Arabidopsis
8.6 99.0 GSM133755 Lindsey_1-7_heart-stage-cotyledon_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
165.5	100.0	GSM131454	AtGen_6-9322_Heatstress-Roots-3.0h_Rep2	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
152.1	99.9	GSM131453	AtGen_6-9321_Heatstress-Roots-3.0h_Rep1	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
80.8	99.9	GSM131451	AtGen_6-9311_Heatstress-Shoots-3.0h_Rep1	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
61.8	99.8	GSM131452	AtGen_6-9312_Heatstress-Shoots-3.0h_Rep2	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
50.1	99.8	GSM133756	Lindsey_1-10_heart-stage-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
42.7	99.8	GSM270870	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
37.1	99.7	GSM131448	AtGen_6-9212_Heatstress-Shoots-1.0h_Rep2	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
36.0	99.7	GSM270868	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
31.1	99.7	GSM133774	Lindsey_1-26_torpedo-meristem_Rep2_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
30.8	99.7	GSM131447	AtGen_6-9211_Heatstress-Shoots-1.0h_Rep1	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
27.3	99.7	GSM131450	AtGen_6-9222_Heatstress-Roots-1.0h_Rep2	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
25.5	99.7	GSM131449	AtGen_6-9221_Heatstress-Roots-1.0h_Rep1	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
18.0	99.5	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
16.7	99.5	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.0	99.5	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.0	99.5	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.0	99.4	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.6	99.4	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.5	99.4	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.9	99.4	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.7	99.4	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.5	99.4	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
13.4	99.4	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
13.3	99.4	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.6	99.3	GSM133723	McCormac_1-1_wildtype-NFtreated_Rep1_ATH1	GSE5726	Seedling transcriptome affected by Norflurazon-induced photobleaching of chloroplasts
12.1	99.3	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
12.1	99.3	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.7	99.3	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
11.6	99.3	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
11.4	99.3	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
10.5	99.2	GSM131457	AtGen_6-9821_Heatstress(3h)+1hrecovery-Roots-4.0h_Rep1	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
10.5	99.2	GSM184524	Stele root cells 2hr KCl control treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.4	99.2	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
10.3	99.2	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
9.7	99.1	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
9.7	99.1	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
9.3	99.1	GSM184525	Stele root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.3	99.1	GSM133776	Lindsey_1-1_globular-apical_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
9.3	99.1	GSM184527	Stele root cells 2hr transitory KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.3	99.1	GSM242955	Steroid day 1 (day1D1)	GSE9605	Target genes of AGAMOUS during early flower development in Arabidopsis
8.8	99.0	GSM184530	Stele root cells 2hr continuous KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
8.8	99.0	GSM242959	Steroid day 3 (day3D1)	GSE9605	Target genes of AGAMOUS during early flower development in Arabidopsis
8.6	99.0	GSM133755	Lindsey_1-7_heart-stage-cotyledon_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO

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	At2g43860
Gene name	polygalacturonase, putative / pectinase, putative
Module size	6 genes
NF	0.28
%ile	33.4

Co-expression analysis

Gene ID At2g43860 Gene name polygalacturonase, putative / pectinase, putative Module size 6 genes NF 0.28 %ile 33.4

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 AmiGO

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 At2g43860

Gene name polygalacturonase, putative / pectinase, putative

Module size 6 genes

NF 0.28

%ile 33.4

: 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

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