Co-expression analysis

Gene ID At1g48850
Gene name EMB1144 (embryo defective 1144)
Module size 5 genes
NF 0.73
%ile 90.5



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
1.00100.01.00At1g48850841307EMB1144 (embryo defective 1144)F:chorismate synthase activity;P:embryonic development ending in seed dormancy, aromatic amino acid family biosynthetic process;C:nucleolus, chloroplast;OBAFPMO.I.H.G.S.X.
0.8693.10.92At1g488608413083-phosphoshikimate 1-carboxyvinyltransferase, putative / 5-enolpyruvylshikimate-3-phosphate, putative / EPSP synthase, putativeF:3-phosphoshikimate 1-carboxyvinyltransferase activity, catalytic activity, transferase activity, transferring alkyl or aryl (other than methyl) groups;P:glyphosate metabolic process, aromatic amino acid family biosynthetic process;C:chloroplast;BOPAFMO.I.H.G.S.X.
0.8693.10.90At2g22250816758aminotransferase class I and II family proteinF:L-aspartate:2-oxoglutarate aminotransferase activity, pyridoxal phosphate binding, transferase activity, transferring nitrogenous groups, catalytic activity;P:embryonic development ending in seed dormancy;C:chloroplast;BOPAMFO.I.H.G.S.X.
0.6176.70.91At1g224108388472-dehydro-3-deoxyphosphoheptonate aldolase, putative / 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase, putative / DAHP synthetase, putativeF:3-deoxy-7-phosphoheptulonate synthase activity;P:aromatic amino acid family biosynthetic process;C:membrane;OBPFO.I.H.G.S.X.
0.4457.20.91At3g06350819809MEE32 (MATERNAL EFFECT EMBRYO ARREST 32)F:NADP or NADPH binding, 3-dehydroquinate dehydratase activity, shikimate 5-dehydrogenase activity, binding, catalytic activity;P:embryonic development ending in seed dormancy;C:chloroplast stroma, chloroplast;BOAFPO.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
98.299.9GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
67.299.8GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
28.799.7GSM154505Arabidopsis hydrated pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
26.899.7GSM154503Arabidopsis desiccated mature pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
25.799.7GSM154507Arabidopsis growing pollen tubes rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
25.199.6E-MEXP-1138-raw-cel-1432772938
23.999.6E-MEXP-1138-raw-cel-1432772778
22.899.6E-MEXP-1138-raw-cel-1432772874
22.599.6E-MEXP-1138-raw-cel-1432772746
22.199.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
20.799.6E-MEXP-1138-raw-cel-1432772810
20.499.6E-MEXP-1138-raw-cel-1432773098
20.299.6E-MEXP-1138-raw-cel-1432772842
19.799.6GSM10456WT Post-Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
19.599.6E-MEXP-1138-raw-cel-1432773386
19.499.6E-MEXP-1138-raw-cel-1432773002
19.499.6E-MEXP-1138-raw-cel-1432773066
19.299.6E-MEXP-1138-raw-cel-1432773034
19.199.6E-MEXP-1138-raw-cel-1432772714
18.899.5GSM154504Arabidopsis desiccated mature pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
18.599.5E-MEXP-1138-raw-cel-1432773226
18.599.5E-MEXP-1138-raw-cel-1432773258
18.599.5E-MEXP-1138-raw-cel-1432773322
18.499.5E-MEXP-1138-raw-cel-1432772970
18.499.5GSM154506Arabidopsis hydrated pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
18.399.5E-MEXP-1138-raw-cel-1432772618
18.399.5E-MEXP-1138-raw-cel-1432772522
18.299.5E-MEXP-1138-raw-cel-1432772650
17.899.5GSM239251Columbia glabrous (C24) wild type pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
17.799.5E-MEXP-1138-raw-cel-1432773130
17.799.5E-MEXP-1138-raw-cel-1432772906
17.799.5GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
17.799.5E-MEXP-1138-raw-cel-1432773194
17.699.5GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
17.499.5E-MEXP-1138-raw-cel-1432772586
17.299.5GSM154508Arabidopsis growing pollen tubes rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
17.099.5E-MEXP-1138-raw-cel-1432773354
17.099.5GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
16.899.5E-MEXP-1138-raw-cel-1432772554
16.799.5E-MEXP-1138-raw-cel-1432773290
16.199.5GSM131636ATGE_73_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
15.999.5GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
15.999.5E-MEXP-1138-raw-cel-1432773162
15.899.5GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
15.799.5E-MEXP-1138-raw-cel-1432772682
15.799.5GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
15.599.5GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
15.499.5GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
15.399.4E-MEXP-285-raw-cel-440782791
15.199.4GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
14.799.4E-ATMX-35-raw-cel-1574334864
14.799.4GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
14.699.4GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
14.499.4GSM142739DH001_ATH1_A6-TCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
14.399.4GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
14.399.4GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
14.399.4GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.899.4GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.599.4GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
13.499.4GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
13.299.4GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
13.199.4GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
12.799.3E-ATMX-35-raw-cel-1574334880
12.699.3GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.599.3E-MEXP-285-raw-cel-440782725
12.399.3GSM106969opr3_OPDA_22 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
12.399.3GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
11.899.3GSM239252Columbia glabrous (C24) wild type stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
11.699.3GSM131609ATGE_43_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
11.699.3GSM131611ATGE_43_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
11.599.3GSM131610ATGE_43_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
11.599.3GSM106916opr3_JA_22 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
11.499.3GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.499.3GSM128676Underwood_1-29_DC3000-10e8-7h_Rep2_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO
11.399.3GSM239254CaMV::DME stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
11.299.2GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.699.2GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.499.2GSM10454WT Post-Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
10.499.2GSM131593ATGE_36_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.199.2GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.199.2GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.699.1GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.699.1GSM131591ATGE_36_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.599.1GSM131592ATGE_36_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.599.1E-ATMX-1-raw-cel-1112746095
9.199.1GSM152137Col-0 drought 2GSE6583Genome-wide transcriptome analysis of Arabidopsis and siz1-3 response to drought stressLink to GEO
8.799.0GSM106913opr3_JA_8 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.3163GO:0009073The chemical reactions and pathways resulting in the formation of aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).Link to AmiGO
0.2861GO:0018920The chemical reactions and pathways involving glyphosate, a broad-spectrum herbicide also known by the trade name Roundup. It is a member of a broad class of compounds known as phosphonic acids, which contain a direct carbon-to-phosphorus (C-P) bond.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.178400400Phenylalanine, tyrosine and tryptophan biosynthesisLink to KEGG PATHWAY
0.045401063Biosynthesis of alkaloids derived from shikimate pathwayLink to KEGG PATHWAY
0.032401061Biosynthesis of phenylpropanoidsLink to KEGG PATHWAY
0.026401070Biosynthesis of plant hormonesLink to KEGG PATHWAY
0.007401100Metabolic 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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