CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At4g01330

Gene name ATP binding / kinase/ protein kinase/ protein serine/threonine kinase/ protein tyrosine kinase

Module size 5 genes

NF 0.22

%ile 21.4

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
0.10 3.4 1.00 At4g01330 828117 ATP binding / kinase/ protein kinase/ protein serine/threonine kinase/ protein tyrosine kinase F:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;MPOBFVA O.I. H.G. S.X.
0.67 81.6 0.84 At3g15450 820784 unknown protein F:molecular_function unknown;P:unknown;C:unknown;PBOMF O.I. H.G. S.X.
0.67 81.6 0.84 At5g19120 832032 aspartic-type endopeptidase F:aspartic-type endopeptidase activity;P:proteolysis;C:endomembrane system;PF O.I. H.G. S.X.
0.57 73.8 0.83 At5g22920 832356 zinc finger (C3HC4-type RING finger) family protein F:protein binding, zinc ion binding;P:unknown;C:unknown;MPOFBA O.I. H.G. S.X.
0.40 50.8 0.84 At2g25900 817131 ATCTH putative Cys3His zinc finger protein (ATCTH) mRNA, complete 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
46.5 99.8 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
41.3 99.8 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
36.4 99.7 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
17.4 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
14.9 99.4 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
11.1 99.2 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.3 99.2 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.2 99.1 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
9.0 99.1 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
8.9 99.0 GSM184497 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
8.8 99.0 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
8.7 99.0 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
8.7 99.0 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.019 1 04120 Ubiquitin mediated proteolysis

Inter-species module comparison

A co-expression module including the grape gene, 1616666_at, orthologous to the query gene, At4g01330

VF %ile Gene ID Repr. ID Gene Name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.67 87.9 1616666_at - hypothetical protein LOC100249984 - 2e-8 At2g30160 mitochondrial substrate carrier family protein O.I. H.G. S.X.
0.71 89.5 1614841_at - - - 6e+0 At5g01610 unknown protein O.I. H.G. S.X.
0.55 77.3 1616475_at - hypothetical protein LOC100243281 /// hypothetical protein LOC100265589 - 2e-1 At4g02830 unknown protein O.I. H.G. S.X.
0.50 72.7 1606834_s_at - hypothetical protein LOC100249984 - 7e-5 At2g30160 mitochondrial substrate carrier family protein O.I. H.G. S.X.
0.33 45.7 1614805_at - - - 1e+0 At1g48730 unknown protein O.I. H.G. S.X.
0.09 9.4 1610366_at - hypothetical protein LOC100261806 - 8e-5 At4g22200 AKT2/3 (ARABIDOPSIS POTASSIUM TRANSPORT 2/3) O.I. H.G. S.X.

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

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