CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At1g67890

Gene name protein kinase family protein

Module size 9 genes

NF 0.73

%ile 90.8

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
0.38 46.7 1.00 At1g67890 843117 protein kinase family protein F:protein serine/threonine/tyrosine kinase activity, kinase activity;P:signal transduction, protein amino acid phosphorylation, regulation of transcription, DNA-dependent;C:unknown;MPOBFVA O.I. H.G. S.X.
1.00 100.0 0.90 At5g65450 836670 UBP17 (UBIQUITIN-SPECIFIC PROTEASE 17) Encodes a ubiquitin-specific protease. O.I. H.G. S.X.
0.93 96.4 0.84 At1g04730 839431 AAA-type ATPase family protein F:nucleoside-triphosphatase activity, ATPase activity, nucleotide binding, ATP binding;P:unknown;C:unknown;OMFBAPV O.I. H.G. S.X.
0.82 90.9 0.90 At1g17450 838317 - F:molecular_function unknown;P:unknown;C:unknown;POB O.I. H.G. S.X.
0.80 89.8 0.85 At5g37580 - - O.I. H.G. S.X.
0.78 88.6 0.83 At5g11690 831041 ATTIM17-3 mitochondrial inner membrane translocase O.I. H.G. S.X.
0.71 84.2 0.82 At4g17610 827480 tRNA/rRNA methyltransferase (SpoU) family protein F:RNA binding, RNA methyltransferase activity;P:RNA processing;C:endomembrane system;BOMPFA O.I. H.G. S.X.
0.70 83.5 0.87 At3g14330 820653 pentatricopeptide (PPR) repeat-containing protein F:unknown;P:biological_process unknown;C:cellular_component unknown;POMF O.I. H.G. S.X.
0.59 74.7 0.88 At4g31930 829323 mitochondrial glycoprotein family protein / MAM33 family protein F:molecular_function unknown;P:biological_process unknown;C:mitochondrion, mitochondrial matrix;PFO O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.38	46.7	1.00	At1g67890	843117	protein kinase family protein	F:protein serine/threonine/tyrosine kinase activity, kinase activity;P:signal transduction, protein amino acid phosphorylation, regulation of transcription, DNA-dependent;C:unknown;MPOBFVA	O.I.	H.G.	S.X.
1.00	100.0	0.90	At5g65450	836670	UBP17 (UBIQUITIN-SPECIFIC PROTEASE 17)	Encodes a ubiquitin-specific protease.	O.I.	H.G.	S.X.
0.93	96.4	0.84	At1g04730	839431	AAA-type ATPase family protein	F:nucleoside-triphosphatase activity, ATPase activity, nucleotide binding, ATP binding;P:unknown;C:unknown;OMFBAPV	O.I.	H.G.	S.X.
0.82	90.9	0.90	At1g17450	838317	-	F:molecular_function unknown;P:unknown;C:unknown;POB	O.I.	H.G.	S.X.
0.80	89.8	0.85	At5g37580		-	-	O.I.	H.G.	S.X.
0.78	88.6	0.83	At5g11690	831041	ATTIM17-3	mitochondrial inner membrane translocase	O.I.	H.G.	S.X.
0.71	84.2	0.82	At4g17610	827480	tRNA/rRNA methyltransferase (SpoU) family protein	F:RNA binding, RNA methyltransferase activity;P:RNA processing;C:endomembrane system;BOMPFA	O.I.	H.G.	S.X.
0.70	83.5	0.87	At3g14330	820653	pentatricopeptide (PPR) repeat-containing protein	F:unknown;P:biological_process unknown;C:cellular_component unknown;POMF	O.I.	H.G.	S.X.
0.59	74.7	0.88	At4g31930	829323	mitochondrial glycoprotein family protein / MAM33 family protein	F:molecular_function unknown;P:biological_process unknown;C:mitochondrion, mitochondrial matrix;PFO	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
142.0 99.9 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
108.8 99.9 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
99.2 99.9 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
77.8 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
74.6 99.9 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
69.5 99.9 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
66.6 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
61.3 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
59.6 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
57.7 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
56.6 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
55.3 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
54.2 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
53.7 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
52.4 99.8 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
51.6 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
51.1 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
50.6 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.5 99.8 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
45.5 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
45.4 99.8 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
42.5 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
41.6 99.8 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
27.0 99.7 E-ATMX-35-raw-cel-1574334816
26.3 99.7 E-ATMX-35-raw-cel-1574334832
19.3 99.6 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
17.6 99.5 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
16.8 99.5 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
15.9 99.5 GSM133773 Lindsey_1-25_torpedo-meristem_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
15.1 99.4 E-ATMX-35-raw-cel-1574334800
12.7 99.3 GSM142740 DH001_ATH1_A7-MPG1 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
9.1 99.1 GSM142804 SS001_ATH1_A7-Smith-10 GSE6174 Gene expression and carbohydrate metabolism through the diurnal cycle

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
142.0	99.9	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
108.8	99.9	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
99.2	99.9	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
77.8	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
74.6	99.9	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
69.5	99.9	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
66.6	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
61.3	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
59.6	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
57.7	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
56.6	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
55.3	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
54.2	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
53.7	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
52.4	99.8	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
51.6	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
51.1	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
50.6	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.5	99.8	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
45.5	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
45.4	99.8	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
42.5	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
41.6	99.8	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
27.0	99.7	E-ATMX-35-raw-cel-1574334816
26.3	99.7	E-ATMX-35-raw-cel-1574334832
19.3	99.6	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
17.6	99.5	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
16.8	99.5	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
15.9	99.5	GSM133773	Lindsey_1-25_torpedo-meristem_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
15.1	99.4	E-ATMX-35-raw-cel-1574334800
12.7	99.3	GSM142740	DH001_ATH1_A7-MPG1	GSE6162	Transcriptome analysis of Arabidopsis microgametogenesis
9.1	99.1	GSM142804	SS001_ATH1_A7-Smith-10	GSE6174	Gene expression and carbohydrate metabolism through the diurnal cycle

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.023 1 GO:0006396 Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.
0.016 1 GO:0015031 The directed movement of proteins into, out of, within or between cells.

SF	Genes	GO ID	Process Name	Link to AmiGO
0.023	1	GO:0006396	Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.
0.016	1	GO:0015031	The directed movement of proteins into, out of, within or between cells.

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	At1g67890
Gene name	protein kinase family protein
Module size	9 genes
NF	0.73
%ile	90.8

Co-expression analysis

Gene ID At1g67890 Gene name protein kinase family protein Module size 9 genes NF 0.73 %ile 90.8

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

SFGenesGO IDProcess NameLink to AmiGO0.0231GO:0006396Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.0.0161GO:0015031The directed movement of proteins into, out of, within or between cells.

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 At1g67890

Gene name protein kinase family protein

Module size 9 genes

NF 0.73

%ile 90.8

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

SF Genes GO ID Process Name Link to AmiGO
0.023 1 GO:0006396 Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.
0.016 1 GO:0015031 The directed movement of proteins into, out of, within or between cells.

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