CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At4g23030

Gene name MATE efflux protein-related

Module size 6 genes

NF 0.30

%ile 37.6

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 At4g23030 828402 MATE efflux protein-related F:antiporter activity, drug transporter activity, transporter activity;P:multidrug transport;C:membrane;BOPFAM O.I. H.G. S.X.
0.57 73.8 0.69 At2g19660 816485 DC1 domain-containing protein F:molecular_function unknown;P:intracellular signaling cascade;C:cellular_component unknown;PMO O.I. H.G. S.X.
0.30 32.1 0.64 At1g06980 837208 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. H.G. S.X.
0.29 30.3 0.68 At1g27670 839659 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.27 26.2 0.67 At4g25260 828629 invertase/pectin methylesterase inhibitor family protein F:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:shade avoidance;C:endomembrane system;P O.I. H.G. S.X.
0.15 7.8 0.64 At4g32460 829381 - F:molecular_function unknown;P:biological_process unknown;C:plant-type cell wall;PB 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	At4g23030	828402	MATE efflux protein-related	F:antiporter activity, drug transporter activity, transporter activity;P:multidrug transport;C:membrane;BOPFAM	O.I.	H.G.	S.X.
0.57	73.8	0.69	At2g19660	816485	DC1 domain-containing protein	F:molecular_function unknown;P:intracellular signaling cascade;C:cellular_component unknown;PMO	O.I.	H.G.	S.X.
0.30	32.1	0.64	At1g06980	837208	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.29	30.3	0.68	At1g27670	839659	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.27	26.2	0.67	At4g25260	828629	invertase/pectin methylesterase inhibitor family protein	F:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:shade avoidance;C:endomembrane system;P	O.I.	H.G.	S.X.
0.15	7.8	0.64	At4g32460	829381	-	F:molecular_function unknown;P:biological_process unknown;C:plant-type cell wall;PB	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
76.6 99.9 GSM106915 opr3_JA_22 hrs_Rep1 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
74.7 99.9 GSM106912 opr3_JA 8hrs_Rep1 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
68.0 99.9 GSM106914 opr3_JA_8 hrs_Rep3 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
62.2 99.8 GSM106917 opr3_JA_22 hrs_Rep3 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
59.2 99.8 GSM106913 opr3_JA_8 hrs_Rep2 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
53.8 99.8 GSM106916 opr3_JA_22 hrs_Rep2 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
41.2 99.8 GSM106973 ws_Rep1 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
29.0 99.7 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
12.9 99.3 GSM239252 Columbia glabrous (C24) wild type stamen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
12.7 99.3 GSM133717 Urwin_A-1-Urwin-Con_SLD GSE5724 Plant gene expression associated with susceptibility to nematodes
12.2 99.3 GSM291024 root - 08% oxygen - 48h - A GSE11558 transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
11.9 99.3 GSM291119 root - 21% oxygen - 48h - A GSE11558 transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
11.7 99.3 GSM133718 Urwin_A-2-Urwin-Inf_SLD GSE5724 Plant gene expression associated with susceptibility to nematodes
11.6 99.3 GSM131609 ATGE_43_A GSE5632 AtGenExpress: Developmental series (flowers and pollen)
9.6 99.1 GSM131610 ATGE_43_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
9.6 99.1 GSM62699 arf6/arf6 ARF8/arf8 flowers_stage 11-12 GSE2848 Auxin Response Factor mediated flower gene expression
9.4 99.1 E-MEXP-1784-raw-cel-1661573074
9.2 99.1 GSM131611 ATGE_43_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
9.1 99.1 GSM133303 RIKEN-NAKABAYASHI1A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
8.8 99.0 GSM173447 oxt6 mutant, biological rep3 GSE7211 A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
8.8 99.0 GSM291023 root - 08% oxygen - 30min - G GSE11558 transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
8.8 99.0 GSM131593 ATGE_36_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
8.7 99.0 GSM291114 root - 21% oxygen - 30min - G GSE11558 transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
8.7 99.0 GSM133952 Murray_2-8_T14-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
76.6	99.9	GSM106915	opr3_JA_22 hrs_Rep1	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
74.7	99.9	GSM106912	opr3_JA 8hrs_Rep1	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
68.0	99.9	GSM106914	opr3_JA_8 hrs_Rep3	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
62.2	99.8	GSM106917	opr3_JA_22 hrs_Rep3	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
59.2	99.8	GSM106913	opr3_JA_8 hrs_Rep2	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
53.8	99.8	GSM106916	opr3_JA_22 hrs_Rep2	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
41.2	99.8	GSM106973	ws_Rep1	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
29.0	99.7	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
12.9	99.3	GSM239252	Columbia glabrous (C24) wild type stamen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
12.7	99.3	GSM133717	Urwin_A-1-Urwin-Con_SLD	GSE5724	Plant gene expression associated with susceptibility to nematodes
12.2	99.3	GSM291024	root - 08% oxygen - 48h - A	GSE11558	transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
11.9	99.3	GSM291119	root - 21% oxygen - 48h - A	GSE11558	transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
11.7	99.3	GSM133718	Urwin_A-2-Urwin-Inf_SLD	GSE5724	Plant gene expression associated with susceptibility to nematodes
11.6	99.3	GSM131609	ATGE_43_A	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
9.6	99.1	GSM131610	ATGE_43_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
9.6	99.1	GSM62699	arf6/arf6 ARF8/arf8 flowers_stage 11-12	GSE2848	Auxin Response Factor mediated flower gene expression
9.4	99.1	E-MEXP-1784-raw-cel-1661573074
9.2	99.1	GSM131611	ATGE_43_C	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
9.1	99.1	GSM133303	RIKEN-NAKABAYASHI1A	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
8.8	99.0	GSM173447	oxt6 mutant, biological rep3	GSE7211	A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
8.8	99.0	GSM291023	root - 08% oxygen - 30min - G	GSE11558	transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
8.8	99.0	GSM131593	ATGE_36_C	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
8.7	99.0	GSM291114	root - 21% oxygen - 30min - G	GSE11558	transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
8.7	99.0	GSM133952	Murray_2-8_T14-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.125 1 GO:0009641 Shade avoidance is a set of responses that plants display when they are subjected to the shade of another plant. It often includes elongation, altered flowering time, increased apical dominance and altered partitioning of resources. Plants are able to distinguish between the shade of an inanimate object (e.g. a rock) and the shade of another plant due to the altered balance between red and far-red light in the shade of a plant; this balance between red and far-red light is perceived by phytochrome.
0.028 1 GO:0006855 The directed movement of drugs across a membrane into, out of, within or between cells.
0.019 1 GO:0007242 A series of reactions within the cell that occur as a result of a single trigger reaction or compound.

SF	Genes	GO ID	Process Name
0.125	1	GO:0009641	Shade avoidance is a set of responses that plants display when they are subjected to the shade of another plant. It often includes elongation, altered flowering time, increased apical dominance and altered partitioning of resources. Plants are able to distinguish between the shade of an inanimate object (e.g. a rock) and the shade of another plant due to the altered balance between red and far-red light in the shade of a plant; this balance between red and far-red light is perceived by phytochrome.
0.028	1	GO:0006855	The directed movement of drugs across a membrane into, out of, within or between cells.
0.019	1	GO:0007242	A series of reactions within the cell that occur as a result of a single trigger reaction or compound.

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

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Gene ID	At4g23030
Gene name	MATE efflux protein-related
Module size	6 genes
NF	0.30
%ile	37.6

Co-expression analysis

Gene ID At4g23030 Gene name MATE efflux protein-related Module size 6 genes NF 0.30 %ile 37.6

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 At4g23030

Gene name MATE efflux protein-related

Module size 6 genes

NF 0.30

%ile 37.6

: 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