CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At3g57510

Gene name ADPG1

Module size 5 genes

NF 0.29

%ile 34.2

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
0.27 26.2 1.00 At3g57510 824918 ADPG1 Encodes ADPG1, a polygalacturonase protein involved in silique and anther dihiscence. Loss of function mutations have reduced seed set, indehiscent fruit and reduced pollen shedding. O.I. H.G. S.X.
0.50 65.3 0.56 At4g25010 828604 nodulin MtN3 family protein F:unknown;P:unknown;C:endomembrane system, integral to membrane, membrane;PMO O.I. H.G. S.X.
0.47 61.2 0.57 At4g16730 827376 lyase/ magnesium ion binding F:lyase activity, magnesium ion binding;P:metabolic process;C:unknown;POB O.I. H.G. S.X.
0.40 50.8 0.47 At3g11430 820316 GPAT5 (GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE 5) Encodes a protein with glycerol-3-phosphate acyltransferase activity, involved in the biosynthesis of suberin polyester. O.I. H.G. S.X.
0.15 7.8 0.48 At5g40350 834033 MYB24 (myb domain protein 24) Myb24 transcription factor. Member of the R2R3 factor gene family. Induced by jasmonate. Involved in jasmonate response during stamen development. O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.27	26.2	1.00	At3g57510	824918	ADPG1	Encodes ADPG1, a polygalacturonase protein involved in silique and anther dihiscence. Loss of function mutations have reduced seed set, indehiscent fruit and reduced pollen shedding.	O.I.	H.G.	S.X.
0.50	65.3	0.56	At4g25010	828604	nodulin MtN3 family protein	F:unknown;P:unknown;C:endomembrane system, integral to membrane, membrane;PMO	O.I.	H.G.	S.X.
0.47	61.2	0.57	At4g16730	827376	lyase/ magnesium ion binding	F:lyase activity, magnesium ion binding;P:metabolic process;C:unknown;POB	O.I.	H.G.	S.X.
0.40	50.8	0.47	At3g11430	820316	GPAT5 (GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE 5)	Encodes a protein with glycerol-3-phosphate acyltransferase activity, involved in the biosynthesis of suberin polyester.	O.I.	H.G.	S.X.
0.15	7.8	0.48	At5g40350	834033	MYB24 (myb domain protein 24)	Myb24 transcription factor. Member of the R2R3 factor gene family. Induced by jasmonate. Involved in jasmonate response during stamen development.	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
93.0 99.9 GSM142735 DH001_ATH1_A2-BCP1 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
82.2 99.9 GSM142737 DH001_ATH1_A4-UNM2 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
64.3 99.8 GSM142738 DH001_ATH1_A5-BCP2 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
58.8 99.8 GSM142734 DH001_ATH1_A1-UNM1 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
48.2 99.8 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
47.0 99.8 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
30.9 99.7 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.8 99.7 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.7 99.7 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
24.3 99.6 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
23.2 99.6 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.9 99.6 GSM133307 RIKEN-NAKABAYASHI3A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
22.9 99.6 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.9 99.6 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.8 99.6 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
22.1 99.6 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
22.1 99.6 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
21.5 99.6 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.6 99.6 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.5 99.6 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
19.9 99.6 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.7 99.5 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.1 99.5 GSM133306 RIKEN-NAKABAYASHI2B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
16.7 99.5 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
15.4 99.5 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
14.4 99.4 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
13.5 99.4 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.0 99.4 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
12.4 99.3 GSM133305 RIKEN-NAKABAYASHI2A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
12.1 99.3 GSM142904 WW002_ATH1_A1-willa-CON-REP2 GSE6181 Assembly of the cell wall pectic matrix.
11.8 99.3 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
11.0 99.2 GSM142902 WW001_ATH1_A1-WILLA-CON GSE6181 Assembly of the cell wall pectic matrix.
10.0 99.2 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.3 99.1 GSM142906 WW002_ATH1_A2-willa-ISOX-REP2 GSE6181 Assembly of the cell wall pectic matrix.

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
93.0	99.9	GSM142735	DH001_ATH1_A2-BCP1	GSE6162	Transcriptome analysis of Arabidopsis microgametogenesis
82.2	99.9	GSM142737	DH001_ATH1_A4-UNM2	GSE6162	Transcriptome analysis of Arabidopsis microgametogenesis
64.3	99.8	GSM142738	DH001_ATH1_A5-BCP2	GSE6162	Transcriptome analysis of Arabidopsis microgametogenesis
58.8	99.8	GSM142734	DH001_ATH1_A1-UNM1	GSE6162	Transcriptome analysis of Arabidopsis microgametogenesis
48.2	99.8	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
47.0	99.8	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
30.9	99.7	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.8	99.7	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.7	99.7	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
24.3	99.6	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
23.2	99.6	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.9	99.6	GSM133307	RIKEN-NAKABAYASHI3A	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
22.9	99.6	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.9	99.6	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.8	99.6	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
22.1	99.6	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
22.1	99.6	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
21.5	99.6	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.6	99.6	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.5	99.6	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
19.9	99.6	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.7	99.5	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.1	99.5	GSM133306	RIKEN-NAKABAYASHI2B	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
16.7	99.5	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
15.4	99.5	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
14.4	99.4	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
13.5	99.4	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.0	99.4	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
12.4	99.3	GSM133305	RIKEN-NAKABAYASHI2A	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
12.1	99.3	GSM142904	WW002_ATH1_A1-willa-CON-REP2	GSE6181	Assembly of the cell wall pectic matrix.
11.8	99.3	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
11.0	99.2	GSM142902	WW001_ATH1_A1-WILLA-CON	GSE6181	Assembly of the cell wall pectic matrix.
10.0	99.2	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.3	99.1	GSM142906	WW002_ATH1_A2-willa-ISOX-REP2	GSE6181	Assembly of the cell wall pectic matrix.

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.250 1 GO:0009830 A cellular process that results in the breakdown of the cell wall that contributes to the process of abscission.
0.200 1 GO:0010345 The chemical reactions and pathways resulting in the formation of suberin monomers and suberin polyesters. Suberin monomers are derived from fatty acids and trans-cinnamic acids. The monomers are then cross-linked with glycerols.
0.154 1 GO:0010047 The process leading to the spontaneous opening of the fruit permitting the escape of seeds.

SF	Genes	GO ID	Process Name
0.250	1	GO:0009830	A cellular process that results in the breakdown of the cell wall that contributes to the process of abscission.
0.200	1	GO:0010345	The chemical reactions and pathways resulting in the formation of suberin monomers and suberin polyesters. Suberin monomers are derived from fatty acids and trans-cinnamic acids. The monomers are then cross-linked with glycerols.
0.154	1	GO:0010047	The process leading to the spontaneous opening of the fruit permitting the escape of seeds.

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	At3g57510
Gene name	ADPG1
Module size	5 genes
NF	0.29
%ile	34.2

Co-expression analysis

Gene ID At3g57510 Gene name ADPG1 Module size 5 genes NF 0.29 %ile 34.2

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 At3g57510

Gene name ADPG1

Module size 5 genes

NF 0.29

%ile 34.2

: 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