CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At2g01970

Gene name endomembrane protein 70, putative

Module size 5 genes

NF 0.34

%ile 45.2

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
0.40 50.8 1.00 At2g01970 814728 endomembrane protein 70, putative F:unknown;P:transport;C:integral to membrane, Golgi apparatus, plasma membrane, plant-type cell wall;MPOF O.I. H.G. S.X.
0.57 73.8 0.95 At1g05520 837054 transport protein, putative F:protein binding, transporter activity, zinc ion binding;P:transport, response to salt stress;C:COPII vesicle coat;MFOP O.I. H.G. S.X.
0.50 65.3 0.93 At1g78920 844231 AVP2 (ARABIDOPSIS VACUOLAR H+-PYROPHOSPHATASE 2) vacuolar-type H+-translocating inorganic pyrophosphatase O.I. H.G. S.X.
0.33 38.1 0.94 At5g13390 831180 NEF1 (NO EXINE FORMATION 1) Required for normal pollen development and lipid accumulation within the tapetum O.I. H.G. S.X.
0.19 12.7 0.93 At5g63840 836504 RSW3 (RADIAL SWELLING 3) radial swelling mutant shown to be specifically impaired in cellulose production. Encodes the alpha-subunit of a glucosidase II enzyme. 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	At2g01970	814728	endomembrane protein 70, putative	F:unknown;P:transport;C:integral to membrane, Golgi apparatus, plasma membrane, plant-type cell wall;MPOF	O.I.	H.G.	S.X.
0.57	73.8	0.95	At1g05520	837054	transport protein, putative	F:protein binding, transporter activity, zinc ion binding;P:transport, response to salt stress;C:COPII vesicle coat;MFOP	O.I.	H.G.	S.X.
0.50	65.3	0.93	At1g78920	844231	AVP2 (ARABIDOPSIS VACUOLAR H+-PYROPHOSPHATASE 2)	vacuolar-type H+-translocating inorganic pyrophosphatase	O.I.	H.G.	S.X.
0.33	38.1	0.94	At5g13390	831180	NEF1 (NO EXINE FORMATION 1)	Required for normal pollen development and lipid accumulation within the tapetum	O.I.	H.G.	S.X.
0.19	12.7	0.93	At5g63840	836504	RSW3 (RADIAL SWELLING 3)	radial swelling mutant shown to be specifically impaired in cellulose production. Encodes the alpha-subunit of a glucosidase II enzyme.	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
98.2 99.9 GSM270814 Arabidopsis cell culture, 4 h_control_rep1 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
80.5 99.9 E-MEXP-1474-raw-cel-1593932929
78.6 99.9 E-MEXP-1474-raw-cel-1593932865
66.3 99.8 E-MEXP-1474-raw-cel-1593932801
30.7 99.7 E-MEXP-1474-raw-cel-1593932897
27.8 99.7 E-MEXP-1474-raw-cel-1593932769
27.7 99.7 GSM47022 Col-0 12 GSE2473 Small RNA biogenesis mutants
22.0 99.6 GSM270866 Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep1 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
22.0 99.6 GSM47020 Col-0 10 GSE2473 Small RNA biogenesis mutants
20.1 99.6 GSM47021 Col-0 11 GSE2473 Small RNA biogenesis mutants
19.6 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
18.5 99.5 GSM47047 rdr2-1 37 GSE2473 Small RNA biogenesis mutants
17.0 99.5 GSM134202 Murray_3-1_D1-GROWTH_Rep1_ATH1 GSE5750 Growth of suspension-cultured cells
14.3 99.4 GSM270853 Arabidopsis cell culture, 4 h_control_rep2 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
13.6 99.4 GSM184497 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
13.5 99.4 GSM133957 Fukuda_1-2_0B_Rep2_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
12.9 99.3 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.9 99.3 GSM134208 Murray_3-4_D7-GROWTH_Rep1_ATH1 GSE5750 Growth of suspension-cultured cells
12.1 99.3 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.2 99.2 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.8 99.2 GSM47043 rdr1-1 33 GSE2473 Small RNA biogenesis mutants
10.3 99.2 GSM142636 MC002_ATH1_A5.2-dubos-5kx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.2 99.2 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.1 99.2 GSM131330 AtGen_6-3622_Saltstress-Roots-24.0h_Rep2 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
10.0 99.2 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.9 99.1 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.8 99.1 GSM133719 Deeken_A-1-Deeke-Tum_SLD_REP1 GSE5725 Agrobacterium tumefaciens-induced tumour development of Arabidopsis thaliana
9.7 99.1 GSM133953 Murray_2-9_T16-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
9.7 99.1 GSM47028 dcl2-1 18 GSE2473 Small RNA biogenesis mutants
9.3 99.1 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
9.1 99.1 GSM47014 Ler 4 GSE2473 Small RNA biogenesis mutants
8.9 99.0 GSM131631 ATGE_58_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
8.6 99.0 E-MEXP-1474-raw-cel-1593932833

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
98.2	99.9	GSM270814	Arabidopsis cell culture, 4 h_control_rep1	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
80.5	99.9	E-MEXP-1474-raw-cel-1593932929
78.6	99.9	E-MEXP-1474-raw-cel-1593932865
66.3	99.8	E-MEXP-1474-raw-cel-1593932801
30.7	99.7	E-MEXP-1474-raw-cel-1593932897
27.8	99.7	E-MEXP-1474-raw-cel-1593932769
27.7	99.7	GSM47022	Col-0 12	GSE2473	Small RNA biogenesis mutants
22.0	99.6	GSM270866	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep1	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
22.0	99.6	GSM47020	Col-0 10	GSE2473	Small RNA biogenesis mutants
20.1	99.6	GSM47021	Col-0 11	GSE2473	Small RNA biogenesis mutants
19.6	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
18.5	99.5	GSM47047	rdr2-1 37	GSE2473	Small RNA biogenesis mutants
17.0	99.5	GSM134202	Murray_3-1_D1-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells
14.3	99.4	GSM270853	Arabidopsis cell culture, 4 h_control_rep2	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
13.6	99.4	GSM184497	Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
13.5	99.4	GSM133957	Fukuda_1-2_0B_Rep2_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
12.9	99.3	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.9	99.3	GSM134208	Murray_3-4_D7-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells
12.1	99.3	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.2	99.2	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.8	99.2	GSM47043	rdr1-1 33	GSE2473	Small RNA biogenesis mutants
10.3	99.2	GSM142636	MC002_ATH1_A5.2-dubos-5kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.2	99.2	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.1	99.2	GSM131330	AtGen_6-3622_Saltstress-Roots-24.0h_Rep2	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
10.0	99.2	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.9	99.1	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.8	99.1	GSM133719	Deeken_A-1-Deeke-Tum_SLD_REP1	GSE5725	Agrobacterium tumefaciens-induced tumour development of Arabidopsis thaliana
9.7	99.1	GSM133953	Murray_2-9_T16-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
9.7	99.1	GSM47028	dcl2-1 18	GSE2473	Small RNA biogenesis mutants
9.3	99.1	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
9.1	99.1	GSM47014	Ler 4	GSE2473	Small RNA biogenesis mutants
8.9	99.0	GSM131631	ATGE_58_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
8.6	99.0	E-MEXP-1474-raw-cel-1593932833

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.080 1 GO:0015992 The directed movement of protons (hydrogen ions) into, out of, within or between cells.
0.061 1 GO:0030244 The chemical reactions and pathways resulting in the formation of cellulose, a linear beta1-4 glucan of molecular mass 50-400 kDa with the pyranose units in the -4C1 conformation.
0.021 1 GO:0009826 The process by which a cell irreversibly increases in size in one [spatial] dimension or along one axis, resulting in the morphogenesis of the cell.

SF	Genes	GO ID	Process Name
0.080	1	GO:0015992	The directed movement of protons (hydrogen ions) into, out of, within or between cells.
0.061	1	GO:0030244	The chemical reactions and pathways resulting in the formation of cellulose, a linear beta1-4 glucan of molecular mass 50-400 kDa with the pyranose units in the -4C1 conformation.
0.021	1	GO:0009826	The process by which a cell irreversibly increases in size in one [spatial] dimension or along one axis, resulting in the morphogenesis of the cell.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.053 1 00052 Galactose metabolism
0.022 1 00500 Starch and sucrose metabolism
0.002 1 01100 Metabolic pathways

SF	Genes	KEGG ID	Pathway name
0.053	1	00052	Galactose metabolism
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

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Gene ID	At2g01970
Gene name	endomembrane protein 70, putative
Module size	5 genes
NF	0.34
%ile	45.2

Co-expression analysis

Gene ID At2g01970 Gene name endomembrane protein 70, putative Module size 5 genes NF 0.34 %ile 45.2

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 KEGG0.053100052Galactose metabolism0.022100500Starch 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 At2g01970

Gene name endomembrane protein 70, putative

Module size 5 genes

NF 0.34

%ile 45.2

: 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
0.053 1 00052 Galactose metabolism
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