CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At3g52360

Gene name unknown protein

Module size 5 genes

NF 0.10

%ile 6.5

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 At3g52360 824401 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. H.G. S.X.
0.36 43.6 0.82 At5g58700 835984 phosphoinositide-specific phospholipase C family protein F:phospholipase C activity, phosphoinositide phospholipase C activity, phosphoric diester hydrolase activity;P:signal transduction, intracellular signaling cascade, lipid metabolic process;C:plasma membrane;MFOP O.I. H.G. S.X.
0.09 2.8 0.78 At5g44790 834509 RAN1 (RESPONSIVE-TO-ANTAGONIST 1) ATP dependent copper transporter vital for ethylene response pathway O.I. H.G. S.X.
0.07 1.9 0.73 At3g59680 825137 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;P O.I. H.G. S.X.
0.06 1.4 0.76 At1g63220 842627 C2 domain-containing protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOF 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	At3g52360	824401	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.36	43.6	0.82	At5g58700	835984	phosphoinositide-specific phospholipase C family protein	F:phospholipase C activity, phosphoinositide phospholipase C activity, phosphoric diester hydrolase activity;P:signal transduction, intracellular signaling cascade, lipid metabolic process;C:plasma membrane;MFOP	O.I.	H.G.	S.X.
0.09	2.8	0.78	At5g44790	834509	RAN1 (RESPONSIVE-TO-ANTAGONIST 1)	ATP dependent copper transporter vital for ethylene response pathway	O.I.	H.G.	S.X.
0.07	1.9	0.73	At3g59680	825137	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;P	O.I.	H.G.	S.X.
0.06	1.4	0.76	At1g63220	842627	C2 domain-containing protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOF	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
126.7 99.9 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
118.5 99.9 E-MEXP-1451-raw-cel-1585200330
104.2 99.9 E-MEXP-1451-raw-cel-1585200298
81.5 99.9 E-MEXP-285-raw-cel-440783152
79.7 99.9 E-MEXP-285-raw-cel-440783213
47.4 99.8 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
43.9 99.8 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
30.9 99.7 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
24.9 99.6 E-MEXP-1451-raw-cel-1585200362
17.4 99.5 GSM131688 ATGE_77_D GSE5634 AtGenExpress: Developmental series (siliques and seeds)
16.5 99.5 E-ATMX-1-raw-cel-1112746154
15.4 99.5 E-ATMX-35-raw-cel-1574334832
14.7 99.4 GSM133820 Yang_1-5_young-pod_Rep3_ATH1 GSE5736 To identify changes in gene expression during silique senescence in Arabidopsis thaliana
14.5 99.4 GSM131690 ATGE_77_F GSE5634 AtGenExpress: Developmental series (siliques and seeds)
13.6 99.4 E-MEXP-791-raw-cel-1122937605
12.1 99.3 GSM184497 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.8 99.3 GSM10480 lec1-1 Cotyledon Stage Seed 2 GSE1051 Seed development in LEAFY COTYLEDON1 mutants
11.8 99.3 GSM131689 ATGE_77_E GSE5634 AtGenExpress: Developmental series (siliques and seeds)
10.8 99.2 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.8 99.2 GSM176878 AWP_AL_Txed_2 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
10.8 99.2 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.5 99.2 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.5 99.1 E-ATMX-35-raw-cel-1574334816
9.4 99.1 GSM176879 AWP_Control_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
9.3 99.1 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
8.9 99.0 GSM131699 ATGE_81_C GSE5634 AtGenExpress: Developmental series (siliques and seeds)
8.7 99.0 E-MEXP-791-raw-cel-1122937569
8.7 99.0 E-MEXP-791-raw-cel-1122937623

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
126.7	99.9	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
118.5	99.9	E-MEXP-1451-raw-cel-1585200330
104.2	99.9	E-MEXP-1451-raw-cel-1585200298
81.5	99.9	E-MEXP-285-raw-cel-440783152
79.7	99.9	E-MEXP-285-raw-cel-440783213
47.4	99.8	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
43.9	99.8	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
30.9	99.7	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
24.9	99.6	E-MEXP-1451-raw-cel-1585200362
17.4	99.5	GSM131688	ATGE_77_D	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
16.5	99.5	E-ATMX-1-raw-cel-1112746154
15.4	99.5	E-ATMX-35-raw-cel-1574334832
14.7	99.4	GSM133820	Yang_1-5_young-pod_Rep3_ATH1	GSE5736	To identify changes in gene expression during silique senescence in Arabidopsis thaliana
14.5	99.4	GSM131690	ATGE_77_F	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
13.6	99.4	E-MEXP-791-raw-cel-1122937605
12.1	99.3	GSM184497	Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.8	99.3	GSM10480	lec1-1 Cotyledon Stage Seed 2	GSE1051	Seed development in LEAFY COTYLEDON1 mutants
11.8	99.3	GSM131689	ATGE_77_E	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
10.8	99.2	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.8	99.2	GSM176878	AWP_AL_Txed_2	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
10.8	99.2	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.5	99.2	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.5	99.1	E-ATMX-35-raw-cel-1574334816
9.4	99.1	GSM176879	AWP_Control_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
9.3	99.1	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
8.9	99.0	GSM131699	ATGE_81_C	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
8.7	99.0	E-MEXP-791-raw-cel-1122937569
8.7	99.0	E-MEXP-791-raw-cel-1122937623

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.067 1 GO:0010119 Any process that modulates the frequency, rate or extent of stomatal movement.
0.043 1 GO:0009873 A series of molecular signals mediated by ethylene (ethene).
0.021 1 GO:0009723 A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ethylene (ethene) stimulus.

SF	Genes	GO ID	Process Name
0.067	1	GO:0010119	Any process that modulates the frequency, rate or extent of stomatal movement.
0.043	1	GO:0009873	A series of molecular signals mediated by ethylene (ethene).
0.021	1	GO:0009723	A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ethylene (ethene) stimulus.

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

Back to the KAGIANA project homepage

Gene ID	At3g52360
Gene name	unknown protein
Module size	5 genes
NF	0.10
%ile	6.5

Co-expression analysis

Gene ID At3g52360 Gene name unknown protein Module size 5 genes NF 0.10 %ile 6.5

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

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 At3g52360

Gene name unknown protein

Module size 5 genes

NF 0.10

%ile 6.5

: 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