Co-expression analysis

Gene ID At1g03060
Gene name WD-40 repeat family protein / beige-related
Module size 5 genes
NF 0.12
%ile 8.3



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
1.00100.01.00At1g03060839323WD-40 repeat family protein / beige-relatedEncodes a WD/BEACH domain protein involved in cell morphogenesis.O.I.H.G.S.X.
0.3338.10.93At4g10570826649UBP9 (UBIQUITIN-SPECIFIC PROTEASE 9)encodes a ubiquitin-specific protease family member, UBP9.O.I.H.G.S.X.
0.3133.80.92At3g23980821982unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAVO.I.H.G.S.X.
0.114.10.92At4g36630829815EMB2754 (EMBRYO DEFECTIVE 2754)F:small GTPase regulator activity, binding;P:embryonic development ending in seed dormancy;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.040.90.92At2g45540819162WD-40 repeat family protein / beige-relatedF:nucleotide binding;P:biological_process unknown;C:cellular_component unknown;MBFOPAO.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
77.499.9GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
75.199.9E-MEXP-807-raw-cel-1173273170
57.099.8GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
48.899.8E-MEXP-807-raw-cel-1173273223
45.799.8E-MEXP-807-raw-cel-1173272948
43.999.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
35.999.7E-MEXP-807-raw-cel-1173273252
32.199.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.599.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.999.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.899.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
28.499.7GSM142851MG001_ATH1_A4-Torres-2N1GSE6176Impact of Type III effectors on plant defense responsesLink to GEO
27.699.7E-MEXP-807-raw-cel-1173273116
27.599.7GSM184919Arabidopsis, root cells, stele, 140 mM NaCls, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
27.499.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
26.499.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.299.7GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
24.899.6E-MEXP-807-raw-cel-1173273060
23.799.6GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.999.6GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.499.6GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.999.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.899.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
20.799.6GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.299.6GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
19.199.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.299.5GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.199.5GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
17.799.5GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
17.599.5GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
17.099.5GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
16.899.5GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
16.599.5GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
16.599.5GSM184920Arabidopsis, root cells, stele, 140 mM NaCls, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
16.499.5GSM184910Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
16.299.5GSM184907Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
16.299.5GSM184922Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
15.799.5GSM142852MG001_ATH1_A5-Torres-2N3GSE6176Impact of Type III effectors on plant defense responsesLink to GEO
15.699.5GSM142853MG001_ATH1_A6-Torres-2N6GSE6176Impact of Type III effectors on plant defense responsesLink to GEO
14.499.4E-MEXP-265-raw-cel-414618693
13.899.4GSM184912Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
13.499.4GSM131113AtGen_B-41_3-6-4_REP3_ATH1GSE5615AtGenExpress: Response to bacterial-(LPS, HrpZ, Flg22) and oomycete-(NPP1) derived elicitorsLink to GEO
13.399.4GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.999.3GSM184908Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
12.799.3GSM184924Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
12.699.3GSM184911Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
12.699.3GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
12.199.3E-MEXP-807-raw-cel-1173273144
12.199.3E-MEXP-265-raw-cel-414618491
11.899.3GSM131139AtGen_B-25_2-4-4_REP2_ATH1GSE5615AtGenExpress: Response to bacterial-(LPS, HrpZ, Flg22) and oomycete-(NPP1) derived elicitorsLink to GEO
11.599.3GSM131702ATGE_82_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
11.099.2GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.999.2E-MEXP-265-raw-cel-414618394
10.999.2GSM184634Arabidopsis, root cells, 140 mM NaCl, replicate 1GSE7636Expression analysis of the effect of protoplasting and FACS sorting in rootsLink to GEO
10.699.2GSM184909Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.699.2GSM131111AtGen_B-39_3-4-4_REP3_ATH1GSE5615AtGenExpress: Response to bacterial-(LPS, HrpZ, Flg22) and oomycete-(NPP1) derived elicitorsLink to GEO
10.299.2GSM131700ATGE_82_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.299.2GSM131141AtGen_B-27_2-6-4_REP2_ATH1GSE5615AtGenExpress: Response to bacterial-(LPS, HrpZ, Flg22) and oomycete-(NPP1) derived elicitorsLink to GEO
9.999.1E-MEXP-807-raw-cel-1173273196
9.899.1GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.899.1GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.799.1GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.799.1E-MEXP-265-raw-cel-414618585
9.599.1GSM184921Arabidopsis, root cells, stele, 140 mM NaCls, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.399.1GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.399.1GSM131112AtGen_B-40_3-5-4_REP3_ATH1GSE5615AtGenExpress: Response to bacterial-(LPS, HrpZ, Flg22) and oomycete-(NPP1) derived elicitorsLink to GEO
9.199.1GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.199.1GSM131148AtGen_B-34_3-6-1_REP3_ATH1GSE5615AtGenExpress: Response to bacterial-(LPS, HrpZ, Flg22) and oomycete-(NPP1) derived elicitorsLink to GEO
9.099.1GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
8.799.0GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
8.699.0E-MEXP-265-raw-cel-414618291

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2861GO:0044086The process by which a vacuole is synthesized, aggregates, and bonds together.Link to AmiGO
0.0871GO:0009825The process by which a cell irreversibly increases in size in two or three [spatial] dimensions or along two or three axes.Link to AmiGO
0.0611GO:0010090The process by which the structures of a hair cell (trichome) cell are generated and organized. This process occurs while the initially relatively unspecialized epidermal cell is acquiring the specialized features of a hair cell. An example of this process is found in Arabidopsis thaliana.Link to AmiGO

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_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays



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