Co-expression analysis

Gene ID At3g53230
Gene name cell division cycle protein 48, putative / CDC48, putative
Module size 6 genes
NF 0.15
%ile 11.1



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
0.3338.11.00At3g53230824489cell division cycle protein 48, putative / CDC48, putativeF:hydrolase activity, nucleoside-triphosphatase activity, binding, nucleotide binding, ATP binding;P:response to cadmium ion;C:cytosol, nucleolus, plasma membrane;BOMFPAVO.I.H.G.S.X.
0.4457.20.79At4g03320827972tic20-IV (TRANSLOCON AT THE INNER ENVELOPE MEMBRANE OF CHLOROPLASTS 20-IV)F:unknown;P:unknown;C:unknown;PBO.I.H.G.S.X.
0.3338.10.71At3g12580820438HSP70 (heat shock protein 70)F:ATP binding;P:in 8 processes;C:cytosol, mitochondrion, cell wall, plasma membrane;OBMFPVAO.I.H.G.S.X.
0.3338.10.66At5g52640835341ATHSP90.1 (HEAT SHOCK PROTEIN 90.1)Encodes a cytosolic heat shock protein AtHSP90.1. AtHSP90.1 interacts with disease resistance signaling components SGT1b and RAR1 and is required for RPS2-mediated resistance.O.I.H.G.S.X.
0.103.40.67At1g22985838906AP2 domain-containing transcription factor, putativeencodes a member of the ERF (ethylene response factor) subfamily B-5 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 7 members in this subfamily.O.I.H.G.S.X.
0.040.90.68At4g15420827213PRLI-interacting factor KF:peptidase activity, zinc ion binding;P:proteolysis, ubiquitin-dependent protein catabolic process;C:intracellular;MOFPBO.I.H.G.S.X.

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Link to AtGenExpress Visualization Tool



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
64.699.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
48.499.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.599.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.699.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.099.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.099.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.099.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.699.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.699.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.099.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.099.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.199.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.799.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.699.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.999.7GSM242958Mock day 3 (day3E2)GSE9605Target genes of AGAMOUS during early flower development in ArabidopsisLink to GEO
27.199.7GSM242960Steroid day 3 (day3D2)GSE9605Target genes of AGAMOUS during early flower development in ArabidopsisLink to GEO
27.199.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.899.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.299.6GSM242954Mock day 1 (day1E2)GSE9605Target genes of AGAMOUS during early flower development in ArabidopsisLink to GEO
23.599.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.099.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.399.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.399.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.999.6GSM133778Lindsey_1-2_globular-apical_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
19.499.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.399.5GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.899.5GSM242956Steroid day 1 (day1D2)GSE9605Target genes of AGAMOUS during early flower development in ArabidopsisLink to GEO
14.399.4E-MEXP-285-raw-cel-440783273
12.699.3E-MEXP-285-raw-cel-440783335
11.399.3GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
11.299.2GSM62697Columbia_stemGSE2848Auxin Response Factor mediated flower gene expressionLink to GEO
10.699.2GSM242955Steroid day 1 (day1D1)GSE9605Target genes of AGAMOUS during early flower development in ArabidopsisLink to GEO
10.499.2E-MEXP-1443-raw-cel-1581869745
9.899.1GSM184911Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.699.1GSM242959Steroid day 3 (day3D1)GSE9605Target genes of AGAMOUS during early flower development in ArabidopsisLink to GEO
9.099.1GSM131329AtGen_6-3621_Saltstress-Roots-24.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1251GO:0046685A 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 an arsenic stimulus from compounds containing arsenic, including arsenates, arsenites, and arsenides.Link to AmiGO
0.0771GO:0009615A 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 stimulus from a virus.Link to AmiGO
0.0511GO:0042542A 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 hydrogen peroxide (H2O2) stimulus.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.028104144EndocytosisLink 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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