CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At4g12330

Gene name CYP706A7

Module size 9 genes

NF 0.37

%ile 50.6

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
0.55 70.6 1.00 At4g12330 826842 CYP706A7 member of CYP706A O.I. H.G. S.X.
0.50 65.3 0.69 At3g22570 821829 protease inhibitor/seed storage/lipid transfer protein (LTP) family protein F:lipid binding;P:lipid transport;C:endomembrane system;P O.I. H.G. S.X.
0.47 61.2 0.67 At2g19060 816423 GDSL-motif lipase/hydrolase family protein F:lipase activity, hydrolase activity, acting on ester bonds;P:lipid metabolic process;C:endomembrane system;PBOFM O.I. H.G. S.X.
0.44 57.2 0.67 At2g32270 817787 ZIP3 A member of Zrt- and Irt-related protein (ZIP) family. transcript is induced in response to zinc deficiency in the root. also response to iron deficiency. O.I. H.G. S.X.
0.40 50.8 0.67 At3g29250 822580 copper ion binding / oxidoreductase F:oxidoreductase activity, copper ion binding;P:metabolic process;C:cellular_component unknown;BOFMPAV O.I. H.G. S.X.
0.40 50.8 0.68 At5g42590 834266 CYP71A16 putative cytochrome P450 O.I. H.G. S.X.
0.25 22.6 0.72 At1g08990 837420 PGSIP5 (PLANT GLYCOGENIN-LIKE STARCH INITIATION PROTEIN 5) F:transferase activity, transferring glycosyl groups;P:biosynthetic process;C:endomembrane system;PMFVBO O.I. H.G. S.X.
0.25 22.6 0.74 At1g72200 843552 zinc finger (C3HC4-type RING finger) family protein F:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVB O.I. H.G. S.X.
0.22 17.5 0.67 At3g45710 823713 proton-dependent oligopeptide transport (POT) family protein F:transporter activity;P:oligopeptide transport;C:membrane;PBMOFA O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.55	70.6	1.00	At4g12330	826842	CYP706A7	member of CYP706A	O.I.	H.G.	S.X.
0.50	65.3	0.69	At3g22570	821829	protease inhibitor/seed storage/lipid transfer protein (LTP) family protein	F:lipid binding;P:lipid transport;C:endomembrane system;P	O.I.	H.G.	S.X.
0.47	61.2	0.67	At2g19060	816423	GDSL-motif lipase/hydrolase family protein	F:lipase activity, hydrolase activity, acting on ester bonds;P:lipid metabolic process;C:endomembrane system;PBOFM	O.I.	H.G.	S.X.
0.44	57.2	0.67	At2g32270	817787	ZIP3	A member of Zrt- and Irt-related protein (ZIP) family. transcript is induced in response to zinc deficiency in the root. also response to iron deficiency.	O.I.	H.G.	S.X.
0.40	50.8	0.67	At3g29250	822580	copper ion binding / oxidoreductase	F:oxidoreductase activity, copper ion binding;P:metabolic process;C:cellular_component unknown;BOFMPAV	O.I.	H.G.	S.X.
0.40	50.8	0.68	At5g42590	834266	CYP71A16	putative cytochrome P450	O.I.	H.G.	S.X.
0.25	22.6	0.72	At1g08990	837420	PGSIP5 (PLANT GLYCOGENIN-LIKE STARCH INITIATION PROTEIN 5)	F:transferase activity, transferring glycosyl groups;P:biosynthetic process;C:endomembrane system;PMFVBO	O.I.	H.G.	S.X.
0.25	22.6	0.74	At1g72200	843552	zinc finger (C3HC4-type RING finger) family protein	F:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVB	O.I.	H.G.	S.X.
0.22	17.5	0.67	At3g45710	823713	proton-dependent oligopeptide transport (POT) family protein	F:transporter activity;P:oligopeptide transport;C:membrane;PBMOFA	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
517.5 100.0 GSM133775 Lindsey_1-27_torpedo-meristem_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
48.6 99.8 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
45.0 99.8 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
44.0 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.4 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
40.1 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
38.8 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
37.2 99.7 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
32.2 99.7 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
29.3 99.7 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
28.1 99.7 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
27.2 99.7 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
26.7 99.7 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.6 99.7 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
22.7 99.6 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.6 99.6 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.6 99.6 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.2 99.4 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.2 99.4 E-MEXP-828-raw-cel-1156922634
12.9 99.3 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
11.4 99.3 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
11.0 99.2 GSM131303 AtGen_6-2611_Osmoticstress-Shoots-24.0h_Rep1 GSE5622 AtGenExpress: Stress Treatments (Osmotic stress)
10.7 99.2 E-MEXP-828-raw-cel-1156922659
9.9 99.1 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
9.3 99.1 GSM176879 AWP_Control_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
9.0 99.1 E-MEXP-828-raw-cel-1156922684
8.6 99.0 GSM133993 Birnbaum_1-26_J0571-2_Rep2_ATH1 GSE5749 A gene expression map of the Arabidopsis root

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
517.5	100.0	GSM133775	Lindsey_1-27_torpedo-meristem_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
48.6	99.8	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
45.0	99.8	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
44.0	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.4	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
40.1	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
38.8	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
37.2	99.7	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
32.2	99.7	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
29.3	99.7	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
28.1	99.7	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
27.2	99.7	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
26.7	99.7	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.6	99.7	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
22.7	99.6	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.6	99.6	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.6	99.6	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.2	99.4	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.2	99.4	E-MEXP-828-raw-cel-1156922634
12.9	99.3	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
11.4	99.3	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
11.0	99.2	GSM131303	AtGen_6-2611_Osmoticstress-Shoots-24.0h_Rep1	GSE5622	AtGenExpress: Stress Treatments (Osmotic stress)
10.7	99.2	E-MEXP-828-raw-cel-1156922659
9.9	99.1	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
9.3	99.1	GSM176879	AWP_Control_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
9.0	99.1	E-MEXP-828-raw-cel-1156922684
8.6	99.0	GSM133993	Birnbaum_1-26_J0571-2_Rep2_ATH1	GSE5749	A gene expression map of the Arabidopsis root

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.091 1 GO:0006829 The directed movement of zinc (Zn) ions into, out of, within or between cells.
0.027 1 GO:0006857 The directed movement of oligopeptides into, out of, within or between cells. Oligopeptides are molecules that contain a small number (2 to 20) of amino-acid residues connected by peptide linkages.
0.016 1 GO:0009058 The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.

SF	Genes	GO ID	Process Name
0.091	1	GO:0006829	The directed movement of zinc (Zn) ions into, out of, within or between cells.
0.027	1	GO:0006857	The directed movement of oligopeptides into, out of, within or between cells. Oligopeptides are molecules that contain a small number (2 to 20) of amino-acid residues connected by peptide linkages.
0.016	1	GO:0009058	The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.027 1 00945 Stilbenoid, diarylheptanoid and gingerol biosynthesis
0.026 1 00903 Limonene and pinene degradation

SF	Genes	KEGG ID	Pathway name	Link to KEGG
0.027	1	00945	Stilbenoid, diarylheptanoid and gingerol biosynthesis
0.026	1	00903	Limonene and pinene degradation

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	At4g12330
Gene name	CYP706A7
Module size	9 genes
NF	0.37
%ile	50.6

Co-expression analysis

Gene ID At4g12330 Gene name CYP706A7 Module size 9 genes NF 0.37 %ile 50.6

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 KEGG0.027100945Stilbenoid, diarylheptanoid and gingerol biosynthesis0.026100903Limonene and pinene degradation

Inter-species module comparison

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

Gene ID At4g12330

Gene name CYP706A7

Module size 9 genes

NF 0.37

%ile 50.6

: 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
0.027 1 00945 Stilbenoid, diarylheptanoid and gingerol biosynthesis
0.026 1 00903 Limonene and pinene degradation

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