CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At2g43880

Gene name polygalacturonase, putative / pectinase, putative

Module size 5 genes

NF 0.73

%ile 90.5

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
0.50 65.3 1.00 At2g43880 818992 polygalacturonase, putative / pectinase, putative F:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMAV O.I. H.G. S.X.
0.80 89.8 0.67 At2g41810 818780 - F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PB O.I. H.G. S.X.
0.80 89.8 0.68 At2g43890 818993 polygalacturonase, putative / pectinase, putative F:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMA O.I. H.G. S.X.
0.75 86.9 0.81 At2g24400 816976 auxin-responsive protein, putative / small auxin up RNA (SAUR_D) F:calmodulin binding;P:response to auxin stimulus;C:cellular_component unknown;PO O.I. H.G. S.X.
0.75 86.9 0.75 At3g59850 825155 polygalacturonase, putative / pectinase, putative F:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMAV O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.50	65.3	1.00	At2g43880	818992	polygalacturonase, putative / pectinase, putative	F:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMAV	O.I.	H.G.	S.X.
0.80	89.8	0.67	At2g41810	818780	-	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PB	O.I.	H.G.	S.X.
0.80	89.8	0.68	At2g43890	818993	polygalacturonase, putative / pectinase, putative	F:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMA	O.I.	H.G.	S.X.
0.75	86.9	0.81	At2g24400	816976	auxin-responsive protein, putative / small auxin up RNA (SAUR_D)	F:calmodulin binding;P:response to auxin stimulus;C:cellular_component unknown;PO	O.I.	H.G.	S.X.
0.75	86.9	0.75	At3g59850	825155	polygalacturonase, putative / pectinase, putative	F:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMAV	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
312.5 100.0 GSM184480 Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
298.1 100.0 GSM184477 Lateral Root Cap root cells 2hr KCl control treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
222.0 100.0 GSM184478 Lateral Root Cap root cells 2hr KCl control treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
213.8 100.0 GSM184483 Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
174.1 100.0 GSM184484 Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
85.3 99.9 GSM184479 Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
78.2 99.9 GSM184908 Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
78.1 99.9 GSM184907 Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
52.5 99.8 GSM133773 Lindsey_1-25_torpedo-meristem_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
48.7 99.8 GSM184481 Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
47.6 99.8 GSM266665 Arabidopsis, root cells, epidermis and lateral root cap, -Fe, replicate 4 GSE10501 Expression analysis of root cell-types after iron deficiency (-Fe) treatment
43.7 99.8 GSM184482 Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
25.9 99.7 GSM184909 Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
19.9 99.6 GSM184634 Arabidopsis, root cells, 140 mM NaCl, replicate 1 GSE7636 Expression analysis of the effect of protoplasting and FACS sorting in roots
18.7 99.5 GSM265414 Arabidopsis, root cells, -Fe, replicate 1 GSE10496 Expression analysis of the effect of protoplasting and FACS sorting in roots exposed to iron deficiency (-Fe)
18.4 99.5 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.3 99.5 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.2 99.5 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.2 99.5 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.6 99.5 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.5 99.5 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.4 99.5 GSM218590 Protoplasted root cells 2hr transitory KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
15.0 99.4 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.7 99.4 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.4 99.4 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
12.6 99.3 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.2 99.3 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
12.2 99.3 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
11.9 99.3 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.2 99.2 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
11.0 99.2 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
10.9 99.2 GSM184476 Lateral Root Cap root cells 2hr KCl control treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.3 99.2 GSM184526 Stele root cells 2hr transitory KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.2 99.1 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
9.1 99.1 GSM184487 Epidermis&Cortex root cells 2hr KCl control treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
8.6 99.0 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
312.5	100.0	GSM184480	Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
298.1	100.0	GSM184477	Lateral Root Cap root cells 2hr KCl control treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
222.0	100.0	GSM184478	Lateral Root Cap root cells 2hr KCl control treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
213.8	100.0	GSM184483	Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
174.1	100.0	GSM184484	Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
85.3	99.9	GSM184479	Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
78.2	99.9	GSM184908	Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
78.1	99.9	GSM184907	Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
52.5	99.8	GSM133773	Lindsey_1-25_torpedo-meristem_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
48.7	99.8	GSM184481	Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
47.6	99.8	GSM266665	Arabidopsis, root cells, epidermis and lateral root cap, -Fe, replicate 4	GSE10501	Expression analysis of root cell-types after iron deficiency (-Fe) treatment
43.7	99.8	GSM184482	Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
25.9	99.7	GSM184909	Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
19.9	99.6	GSM184634	Arabidopsis, root cells, 140 mM NaCl, replicate 1	GSE7636	Expression analysis of the effect of protoplasting and FACS sorting in roots
18.7	99.5	GSM265414	Arabidopsis, root cells, -Fe, replicate 1	GSE10496	Expression analysis of the effect of protoplasting and FACS sorting in roots exposed to iron deficiency (-Fe)
18.4	99.5	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.3	99.5	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.2	99.5	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.2	99.5	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.6	99.5	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.5	99.5	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.4	99.5	GSM218590	Protoplasted root cells 2hr transitory KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
15.0	99.4	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.7	99.4	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.4	99.4	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
12.6	99.3	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.2	99.3	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
12.2	99.3	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
11.9	99.3	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.2	99.2	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
11.0	99.2	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
10.9	99.2	GSM184476	Lateral Root Cap root cells 2hr KCl control treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.3	99.2	GSM184526	Stele root cells 2hr transitory KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.2	99.1	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
9.1	99.1	GSM184487	Epidermis&Cortex root cells 2hr KCl control treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
8.6	99.0	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1

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
0.054 1 00040 Pentose and glucuronate interconversions
0.022 1 00500 Starch and sucrose metabolism
0.002 1 01100 Metabolic pathways

SF	Genes	KEGG ID	Pathway name
0.054	1	00040	Pentose and glucuronate interconversions
0.022	1	00500	Starch and sucrose metabolism
0.002	1	01100	Metabolic pathways

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	At2g43880
Gene name	polygalacturonase, putative / pectinase, putative
Module size	5 genes
NF	0.73
%ile	90.5

Co-expression analysis

Gene ID At2g43880 Gene name polygalacturonase, putative / pectinase, putative Module size 5 genes NF 0.73 %ile 90.5

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 KEGG0.054100040Pentose and glucuronate interconversions0.022100500Starch and sucrose metabolism0.002101100Metabolic pathways

Inter-species module comparison

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

Gene ID At2g43880

Gene name polygalacturonase, putative / pectinase, putative

Module size 5 genes

NF 0.73

%ile 90.5

: 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
0.054 1 00040 Pentose and glucuronate interconversions
0.022 1 00500 Starch and sucrose metabolism
0.002 1 01100 Metabolic pathways

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