Co-expression analysis

Gene ID At2g48140
Gene name EDA4 (embryo sac development arrest 4)
Module size 5 genes
NF 0.81
%ile 94.7



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
0.7385.51.00At2g48140819426EDA4 (embryo sac development arrest 4)F:lipid binding;P:megagametogenesis, lipid transport;C:anchored to membrane;PBMOFVO.I.H.G.S.X.
1.00100.00.91At1g68850843218peroxidase, putativeF:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOBMO.I.H.G.S.X.
1.00100.00.89At5g41040834106transferase family proteinF:transferase activity, transferring acyl groups other than amino-acyl groups, transferase activity;P:biological_process unknown;C:cellular_component unknown;PFBOO.I.H.G.S.X.
0.8693.10.89At4g36610829813hydrolase, alpha/beta fold family proteinF:hydrolase activity;P:biological_process unknown;C:endomembrane system;BOMPFAO.I.H.G.S.X.
0.6176.70.91At5g09530830812hydroxyproline-rich glycoprotein family proteinF:unknown;P:biological_process unknown;C:endomembrane system;MBOPFVAO.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
74.199.9GSM142885CW001_ATH1_A1.4-WestC-kubGSE6178Mechanisms of DNA double strand break repair in Arabidopsis non-homologous end joining mutantsLink to GEO
73.399.9GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
47.699.8GSM133945Murray_2-1_T0-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
39.199.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.099.8GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
37.499.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.399.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.699.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.899.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.799.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.699.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.499.7GSM133950Murray_2-6_T10-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
33.499.7GSM133951Murray_2-7_T12-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
32.599.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.199.7GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
30.499.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.399.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.799.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.399.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.299.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.999.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
26.399.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.199.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.099.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.699.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.999.6GSM133952Murray_2-8_T14-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
24.099.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
23.199.6GSM133949Murray_2-5_T8-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
23.099.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.399.6GSM133948Murray_2-4_T6-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
20.199.6GSM133953Murray_2-9_T16-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
19.299.6GSM13779Dexamethasone plus cycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
19.199.6GSM13784Cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
16.199.5GSM142883CW001_ATH1_A1.2-WestC-wsbGSE6178Mechanisms of DNA double strand break repair in Arabidopsis non-homologous end joining mutantsLink to GEO
15.999.5GSM133947Murray_2-3_T4-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
15.499.5GSM13783Dexamethasone plus cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
14.399.4E-MEXP-682-raw-cel-922397560
10.599.2GSM311295Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
9.999.1E-MEXP-682-raw-cel-922397577
9.799.1GSM189112HSP90_Reduced_RNAi-A3_Biological_Replicate_2_Technical_Replicate_1GSE7796Phenotypic Diversity and Altered Environmental Plasticity in Arabidopsis thaliana with Reduced HSP90 LevelsLink to GEO
9.599.1GSM133957Fukuda_1-2_0B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
9.099.1GSM176879AWP_Control_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2001GO:0010345The chemical reactions and pathways resulting in the formation of suberin monomers and suberin polyesters. Suberin monomers are derived from fatty acids and trans-cinnamic acids. The monomers are then cross-linked with glycerols.Link to AmiGO
0.0871GO:0009561The process whose specific outcome is the progression of the embryo sac over time, from its formation as the megaspore to the mature structure. The process begins when three of the four haploid megaspores disintegrate, and the fourth undergoes mitosis giving rise to a binucleate syncytial embryo sac. The two haploid nuclei migrate to the opposite poles of the embryo sac and then undergo two rounds of mitosis generating four haploid nuclei at each pole. One nucleus from each set of four migrates to the center of the cell. Cellularization occurs, resulting in an eight-nucleate seven-celled structure. This structure contains two synergid cells and an egg cell at the micropylar end, and three antipodal cells at the other end. A binucleate endosperm mother cell is formed at the center.Link to AmiGO
0.0161GO:0006869The directed movement of lipids into, out of, within or between cells. Lipids are compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.024100360Phenylalanine metabolismLink to KEGG PATHWAY
0.023100680Methane metabolismLink to KEGG PATHWAY
0.019100940Phenylpropanoid biosynthesisLink 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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