Co-expression analysis

Gene ID At2g39760
Gene name BPM3
Module size 19 genes
NF 0.68
%ile 87.7



Co-expression network

pink confeito: Transcription factor, green bicone: Binding protein, red cone: Enzyme protein, blue sphere: Other protein
large node: VF over 0.50, middle node: over 0.25, small node: 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
0.7184.21.00At2g39760818561BPM3F:protein binding;P:biological_process unknown;C:unknown;MPOFVO.I.H.G.S.X.
0.8693.10.93At4g16100827296unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.8491.90.92At3g13340820534WD-40 repeat family proteinF:molecular_function unknown;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex, heterotrimeric G-protein complex;BMFOPAO.I.H.G.S.X.
0.8290.90.91At1g04830839404RabGAP/TBC domain-containing proteinF:RAB GTPase activator activity;P:regulation of Rab GTPase activity;C:intracellular;MOFPBO.I.H.G.S.X.
0.7888.60.92At1g56560842110beta-fructofuranosidase, putative / invertase, putative / saccharase, putative / beta-fructosidase, putativeF:catalytic activity, beta-fructofuranosidase activity;P:biological_process unknown;C:unknown;OPBO.I.H.G.S.X.
0.7586.90.93At1g04790839412zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVO.I.H.G.S.X.
0.7184.20.91At2g01600814689epsin N-terminal homology (ENTH) domain-containing proteinF:phospholipid binding, clathrin binding, binding, phosphatidylinositol binding;P:N-terminal protein myristoylation, clathrin coat assembly;C:membrane;MPFOBO.I.H.G.S.X.
0.6781.60.92At3g01200821293AtRP2 (PPDK regulatory protein 2)Encodes a PPDK regulatory protein that has protein kinase activity but lacks protein phosphatase activity towards PPDK (pyruvate orthophosphate dikinase).O.I.H.G.S.X.
0.6781.60.91At3g10030820164aspartate/glutamate/uridylate kinase family proteinF:DNA binding;P:amino acid biosynthetic process;C:cytoplasm;BOPAMFO.I.H.G.S.X.
0.6781.60.91At3g21290821683dentin sialophosphoprotein-relatedF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BMOFPVAO.I.H.G.S.X.
0.6579.60.93At3g24200822006FAD binding / monooxygenase/ oxidoreductase/ oxidoreductase, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygenF:oxidoreductase activity, monooxygenase activity, FAD binding, oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen;P:ubiquinone biosynthetic process, metabolic process;C:unknown;BOFMPAO.I.H.G.S.X.
0.6579.60.92At5g45360834572F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOBO.I.H.G.S.X.
0.6579.60.91At4g33210829457F-box family protein (FBL15)F:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:unknown;MPOFBVO.I.H.G.S.X.
0.6579.60.93At1g04230839575unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPBVO.I.H.G.S.X.
0.6378.10.93At5g53440835425unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cytosol;MOFBPVAO.I.H.G.S.X.
0.6277.30.92At3g20800821628rcd1-like cell differentiation protein, putativeF:molecular_function unknown;P:multicellular organismal development;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.6075.70.94At3g59380825107FTA (FARNESYLTRANSFERASE A)Encodes the alpha-subunit shared between protein farnesyltransferase and protein geranylgeranyltransferase-I. Involved in protein prenylation: covalent attachment of the C-15 isoprene farnesyl or the C-20 isoprene geranylgeranyl groups to the C-terminal end of some proteins. Involved in shoot and flower meristem homeostasis, and response to ABA and drought. Also regulates leaf cell shape. Mutant is epistatic to era1.O.I.H.G.S.X.
0.5974.70.92At1g71800843510cleavage stimulation factor, putativeF:protein binding, RNA binding;P:biological_process unknown;C:cellular_component unknown;MPFOBAO.I.H.G.S.X.
0.5873.80.91At4g29790829101unknown proteinF:molecular_function unknown;P:unknown;C:unknown;OMPFBVO.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
69.299.9GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
22.899.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
21.699.6GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.399.6GSM131609ATGE_43_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
18.399.5GSM131610ATGE_43_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
17.799.5GSM131606ATGE_42_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
16.799.5GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
16.299.5GSM131607ATGE_42_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
16.199.5GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
16.199.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.999.5GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
15.399.4GSM131611ATGE_43_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
14.899.4GSM184893Arabidopsis, root cells, columella root cap, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
14.699.4GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.599.4GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.499.4GSM184894Arabidopsis, root cells, columella root cap, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
14.399.4GSM266668Arabidopsis, root cells, columella root cap, -Fe, replicate 3GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
14.299.4GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.099.4GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.999.4GSM131608ATGE_42_DGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
13.699.4GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
13.599.4GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.299.4GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
12.899.3GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.699.3GSM266667Arabidopsis, root cells, columella root cap, -Fe, replicate 2GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
12.599.3GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.499.3GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.999.3GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.899.3GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.899.3GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.099.2GSM184892Arabidopsis, root cells, columella root cap, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.399.2GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
9.699.1GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.099.1GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1001GO:0018347The covalent attachment of a farnesyl moiety to a protein amino acid.Link to AmiGO
0.0951GO:0008360Any process that modulates the surface configuration of a cell.Link to AmiGO
0.0951GO:0018348The covalent attachment of a geranylgeranyl moiety to a protein amino acid.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.045100130Ubiquinone and other terpenoid-quinone biosynthesisLink to KEGG PATHWAY
0.030103018RNA degradationLink to KEGG PATHWAY
0.002101100Metabolic pathwaysLink to KEGG PATHWAY

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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