Co-expression analysis

Gene ID At5g42340
Gene name binding / ubiquitin-protein ligase
Module size 5 genes
NF 0.55
%ile 76.8



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
0.6781.61.00At5g42340834240binding / ubiquitin-protein ligaseF:ubiquitin-protein ligase activity, binding;P:protein ubiquitination;C:ubiquitin ligase complex;MPOFBVO.I.H.G.S.X.
0.6781.60.96At2g35210818088RPA (ROOT AND POLLEN ARFGAP)A member of ARF GAP domain (AGD), A thaliana has 15 members, grouped into four classes.O.I.H.G.S.X.
0.6781.60.96At5g36260833623aspartyl protease family proteinF:aspartic-type endopeptidase activity;P:proteolysis;C:anchored to membrane;PMFOO.I.H.G.S.X.
0.4050.80.97At3g20200821564protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation, response to stress;C:cellular_component unknown;MPOBFVAO.I.H.G.S.X.
0.4050.80.96At3g61230825295LIM domain-containing proteinF:protein binding, zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MPOFO.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
88.199.9GSM184478Lateral Root Cap root cells 2hr KCl control treated, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
65.099.8GSM133754Turner_A-8-Turne-WT-Base2_SLDGSE5729Role of COV in vascular patterningLink to GEO
63.199.8GSM133753Turner_A-7-Turne-WT-Base1_SLDGSE5729Role of COV in vascular patterningLink to GEO
45.399.8E-MEXP-265-raw-cel-414618693
44.399.8GSM131656ATGE_27_BGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
43.999.8E-MEXP-265-raw-cel-414618585
41.899.8E-MEXP-265-raw-cel-414618394
41.699.8GSM184477Lateral Root Cap root cells 2hr KCl control treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
40.599.8GSM131655ATGE_27_AGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
40.299.8E-MEXP-265-raw-cel-414618491
37.099.7GSM133962Fukuda_1-7_6A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
34.199.7E-MEXP-265-raw-cel-414618291
32.999.7GSM131657ATGE_27_CGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
29.699.7GSM184483Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
28.699.7E-MEXP-265-raw-cel-414618796
28.399.7E-MEXP-265-raw-cel-414617890
27.499.7GSM184480Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
25.899.7GSM133963Fukuda_1-8_6B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
25.599.7E-MEXP-265-raw-cel-414617783
24.399.6GSM142635MC002_ATH1_A5.1-dubos-5kxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
22.999.6E-MEXP-265-raw-cel-414617695
22.499.6GSM184479Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
20.699.6GSM184846Arabidopsis, root, longitudinal zone 4, standard conditions, NaCl, replicate 2GSE7639Expression analysis of root developmental zones after treatment with saltLink to GEO
19.599.6GSM133961Fukuda_1-6_4B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
19.499.6GSM133750Turner_A-4-Turne-Mut-Base2_SLDGSE5729Role of COV in vascular patterningLink to GEO
19.099.5GSM142637MC002_ATH1_A5.3-dubos-5kxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
18.499.5GSM184845Arabidopsis, root, longitudinal zone 4, standard conditions, NaCl, replicate 1GSE7639Expression analysis of root developmental zones after treatment with saltLink to GEO
18.099.5GSM27362WT StemGSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
16.499.5E-MEXP-828-raw-cel-1156922872
15.999.5GSM133749Turner_A-3-Turne-Mut-Base1_SLDGSE5729Role of COV in vascular patterningLink to GEO
15.899.5E-MEXP-828-raw-cel-1156922905
14.999.4GSM184484Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.499.4E-MEXP-828-raw-cel-1156922968
13.799.4GSM131378AtGen_6-5522_Genotoxicstress-Roots-12.0h_Rep2GSE5625AtGenExpress: Stress Treatments (Genotoxic stress)Link to GEO
13.799.4E-MEXP-828-raw-cel-1156922987
13.599.4E-MEXP-828-raw-cel-1156922891
12.899.3E-MEXP-828-raw-cel-1156922846
12.299.3GSM128661Underwood_1-14_Cor-5x10e7-10h_Rep2_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO
12.099.3GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.999.3E-ATMX-1-raw-cel-1112746154
11.899.3E-MEXP-828-raw-cel-1156922944
11.599.3E-MEXP-828-raw-cel-1156922829
11.399.3GSM133960Fukuda_1-5_4A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
10.799.2GSM142636MC002_ATH1_A5.2-dubos-5kxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
10.799.2GSM184910Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.799.2GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.699.2GSM131453AtGen_6-9321_Heatstress-Roots-3.0h_Rep1GSE5628AtGenExpress: Stress Treatments (Heat stress)Link to GEO
10.699.2E-MEXP-828-raw-cel-1156922809
10.599.2GSM128786Somerville_1-9_stem-GC8_Rep2_ATH1GSE5533Tissue Type Arrays of Columbia-0Link to GEO
10.599.2GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.499.2GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.399.2GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.399.2GSM131659ATGE_28_B2GSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
10.299.2GSM218596Whole roots 3.5hr KNO3 treated then frozen, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.299.2GSM128785Somerville_1-8_stem-GC7_Rep1_ATH1GSE5533Tissue Type Arrays of Columbia-0Link to GEO
9.999.1E-MEXP-1451-raw-cel-1585200362
9.999.1GSM131326AtGen_6-3522_Saltstress-Roots-12.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
9.899.1GSM131302AtGen_6-2522_Osmoticstress-Roots-12.0h_Rep2GSE5622AtGenExpress: Stress Treatments (Osmotic stress)Link to GEO
9.799.1GSM184838Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 8GSE7639Expression analysis of root developmental zones after treatment with saltLink to GEO
9.799.1GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
9.799.1GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.799.1GSM75521slr-1 6h NAA replicate 2GSE3350SLR/IAA14-dependent auxin induced lateral root initiationLink to GEO
9.699.1GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
9.699.1GSM131377AtGen_6-5521_Genotoxicstress-Roots-12.0h_Rep1GSE5625AtGenExpress: Stress Treatments (Genotoxic stress)Link to GEO
9.599.1GSM131660ATGE_28_C2GSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
9.599.1GSM131301AtGen_6-2521_Osmoticstress-Roots-12.0h_Rep1GSE5622AtGenExpress: Stress Treatments (Osmotic stress)Link to GEO
9.499.1E-MEXP-1443-raw-cel-1581869921
9.499.1GSM75512Col-0 0h NAA replicate 2GSE3350SLR/IAA14-dependent auxin induced lateral root initiationLink to GEO
9.399.1GSM184482Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.299.1GSM131454AtGen_6-9322_Heatstress-Roots-3.0h_Rep2GSE5628AtGenExpress: Stress Treatments (Heat stress)Link to GEO
9.099.1GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
8.999.0GSM131699ATGE_81_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
8.999.0E-MEXP-722-raw-cel-1062243239
8.999.0GSM133965Fukuda_1-10_8B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
8.899.0GSM218593Whole roots 3.5hr KCl control treated then frozen, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
8.799.0GSM131658ATGE_28_A2GSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
8.699.0GSM131698ATGE_81_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0251GO:0009555The process whose specific outcome is the progression of the pollen grain over time, from its formation to the mature structure. The process begins with the meiosis of the microsporocyte to form four haploid microspores. The nucleus of each microspore then divides by mitosis to form a two-celled organism, the pollen grain, that contains a tube cell as well as a smaller generative cell. The pollen grain is surrounded by an elaborate cell wall. In some species, the generative cell immediately divides again to give a pair of sperm cells. In most flowering plants, however this division takes place later, in the tube that develops when a pollen grain germinates.Link to AmiGO
0.0211GO:0016567The process by which one or more ubiquitin moieties are added to a protein.Link to AmiGO
0.0201GO:0006950A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).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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