Co-expression analysis

Gene ID At5g20910
Gene name zinc finger (C3HC4-type RING finger) family protein
Module size 73 genes
NF 0.26
%ile 28.9



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
1.00100.01.00At5g20910832215zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:nucleus;PMOFVO.I.H.G.S.X.
0.5873.80.82At5g66140836746PAD2 (PROTEASOME ALPHA SUBUNIT D 2)Encodes alpha5 subunit of 20S proteosome complex involved in protein degradation.O.I.H.G.S.X.
0.5773.80.84At1g09100837431RPT5B (26S proteasome AAA-ATPase subunit RPT5B)Encodes RPT5b (Regulatory Particle 5b), one of the six AAA-ATPases of the proteasome regulatory particle. Essential for gametophyte development. In Arabidopsis, the RPT5 subunit is encoded by two highly homologous genes, RPT5a and RPT5b. RPT5a and RPT5b show accession-dependent functional redundancy. In Wassilewskija (Ws) accession: mutant alleles of RPT5a displayed 50% pollen lethality, indicating that RPT5a is essential for male gametophyte development. In the Columbia (Col) accession, a rpt5a mutant allele did not display such a phenotype because the RPT5b Col allele complements the rpt5a defect in the male gametophyte, whereas the RPT5b Ws allele does not. Double rpt5a rpt5b mutants in Col background showed a complete male and female gametophyte lethal phenotype.O.I.H.G.S.X.
0.5773.80.81At3g53970824564proteasome inhibitor-relatedF:molecular_function unknown;P:unknown;C:unknown;MFOBPVAO.I.H.G.S.X.
0.5673.00.86At5g40580834056PBB2Encodes 20S proteasome beta subunit PBB2 (PBB2).O.I.H.G.S.X.
0.5368.60.84At3g11270820298MEE34 (maternal effect embryo arrest 34)F:molecular_function unknown;P:embryonic development ending in seed dormancy, protein catabolic process, ubiquitin-dependent protein catabolic process;C:nucleus, proteasome regulatory particle, lid subcomplex;MFPOO.I.H.G.S.X.
0.5368.60.83At1g16470838217PAB1 (PROTEASOME SUBUNIT PAB1)Encodes 20S proteasome subunit PAB1 (PAB1).O.I.H.G.S.X.
0.5166.30.84At4g29040829025RPT2a (regulatory particle AAA-ATPase 2a)26S proteasome AAA-ATPase subunit RPT2a (RPT2a) mRNA,O.I.H.G.S.X.
0.5065.30.84At5g19990832121RPT6A (REGULATORY PARTICLE TRIPLE-A ATPASE 6A)26S proteasome AAA-ATPase subunitO.I.H.G.S.X.
0.4862.50.82At5g42790834290PAF1encodes a protein with extensive homology to the largest subunit of the multicatalytic proteinase complex (proteasome)O.I.H.G.S.X.
0.4761.20.82At1g7921084426220S proteasome alpha subunit B, putativeF:endopeptidase activity, threonine-type endopeptidase activity;P:defense response to bacterium, ubiquitin-dependent protein catabolic process;C:proteasome core complex;MFOPABO.I.H.G.S.X.
0.4558.30.81At4g31300829257PBA1Encodes 20S proteasome subunit PBA1 (PBA1).O.I.H.G.S.X.
0.4558.30.81At1g53850841822PAE1Encodes alpha5 subunit of 20s proteosome involved in protein degradation.O.I.H.G.S.X.
0.4457.20.81At2g05840815135PAA2 (20S PROTEASOME SUBUNIT PAA2)Encodes 20S proteasome subunit PAA2 (PAA2).O.I.H.G.S.X.
0.4457.20.80At4g14800827135PBD2 (20S PROTEASOME BETA SUBUNIT 2)Encodes 20S proteasome beta subunit PBD2 (PBD2).O.I.H.G.S.X.
0.4355.30.83At5g58290835941RPT3 (REGULATORY PARTICLE TRIPLE-A ATPASE 3)26S proteasome AAA-ATPase subunit RPT3 (RPT3) mRNA,O.I.H.G.S.X.
0.4355.30.81At1g0481083940926S proteasome regulatory subunit, putativeF:enzyme regulator activity, binding;P:protein catabolic process, ubiquitin-dependent protein catabolic process;C:proteasome regulatory particle, base subcomplex, nucleus, plasma membrane;MFOPBAO.I.H.G.S.X.
0.4253.90.81At1g29150839789ATS9 (ARABIDOPSIS NON-ATPASE SUBUNIT 9)specifically interacts with FUS6/COP11 via the C-terminal domain of FUS6/COP11 and associates with an ATPase subunit of the 19S proteasome regulatory complex, AtS6A.O.I.H.G.S.X.
0.4050.80.80At1g56450842098PBG120S proteasome beta subunit PBG1 (PBG1) mRNA, complete cdsO.I.H.G.S.X.
0.4050.80.79At3g22630821834PBD1 (20S PROTEASOME BETA SUBUNIT D1)Encodes 20S proteasome beta subunit PBD1 (PBD1).O.I.H.G.S.X.
0.4050.80.79At1g64520842760RPN12a (Regulatory Particle non-ATPase 12a)F:peptidase activity;P:in 14 processes;C:proteasome complex, nucleus, proteasome regulatory particle, lid subcomplex, chloroplast envelope;MFOPO.I.H.G.S.X.
0.3948.40.79At1g13060837863PBE1Encodes 20S proteasome beta subunit PBE1 (PBE1).O.I.H.G.S.X.
0.3846.70.78At2g03430814872ankyrin repeat family proteinF:protein binding;P:biological_process unknown;C:cell wall;MOFBPVAO.I.H.G.S.X.
0.3846.70.83At5g2354083242026S proteasome regulatory subunit, putativeF:unknown;P:response to salt stress, protein catabolic process, ubiquitin-dependent protein catabolic process;C:nucleus, proteasome regulatory particle, lid subcomplex;MFPOO.I.H.G.S.X.
0.3846.70.80At3g25545822141unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3846.70.79At4g2482082858526S proteasome regulatory subunit, putative (RPN7)F:molecular_function unknown;P:protein catabolic process, ubiquitin-dependent protein catabolic process;C:nucleus, plasma membrane, proteasome regulatory particle, lid subcomplex, membrane;MFPOO.I.H.G.S.X.
0.3745.00.85At3g13330820533bindingF:binding;P:unknown;C:cellular_component unknown;FMOPO.I.H.G.S.X.
0.3643.60.80At1g20200838609EMB2719 (EMBRYO DEFECTIVE 2719)F:enzyme regulator activity;P:embryonic development ending in seed dormancy, ubiquitin-dependent protein catabolic process;C:plasma membrane, proteasome regulatory particle, lid subcomplex;MFPOO.I.H.G.S.X.
0.3643.60.79At4g38630830019RPN10 (REGULATORY PARTICLE NON-ATPASE 10)Regulatory particle non-ATPase subunit of the 26S proteasome with multiubiquitin-chain-binding capabilitiesO.I.H.G.S.X.
0.3541.60.79At3g51260824289PAD1 (20s proteasome alpha subunit pad1)20S proteosomal alpha subunits. Interacts with SnRK, SKP1/ASK1 during proteasomal binding of an SCF ubiquitin ligase.O.I.H.G.S.X.
0.3439.80.80At1g21720838776PBC1 (PROTEASOME BETA SUBUNIT C1)20S proteasome beta subunit PBC1 truncated protein (PBC1)O.I.H.G.S.X.
0.3439.80.80At4g27680828882MSP1 protein, putative / intramitochondrial sorting protein, putativeF:nucleoside-triphosphatase activity, ATPase activity, nucleotide binding, ATP binding;P:unknown;C:endomembrane system;OBMFPAVO.I.H.G.S.X.
0.3338.10.83At5g38650833855proteasome maturation factor UMP1 family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.3338.10.80At3g08690820016UBC11 (UBIQUITIN-CONJUGATING ENZYME 11)F:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;MFOPVO.I.H.G.S.X.
0.3235.70.79At3g60820825253PBF1Encodes 20S proteasome beta subunit PBF1 (PBF1).O.I.H.G.S.X.
0.3032.10.81At1g65020842810-F:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum, plasma membrane;PBMOO.I.H.G.S.X.
0.3032.10.78At3g15180820749proteasome-relatedF:binding;P:biological_process unknown;C:plasma membrane;MPOBO.I.H.G.S.X.
0.2930.30.83At4g11740826779SAY1Isolated as a suppressor of a dominant mutant in the Ara4 gene that was expressed in yeast ypt1 mutant strains. A novel protein with a small region of similarity to coil-coiled domain of yeast VSP27 protein.O.I.H.G.S.X.
0.2930.30.79At5g51570835231band 7 family proteinF:unknown;P:N-terminal protein myristoylation;C:plasma membrane, vacuole;BOPFMAVO.I.H.G.S.X.
0.2930.30.79At1g77440844080PBC2Encodes beta subunit of 20s proteosome complex which is involved in protein degradation.O.I.H.G.S.X.
0.2830.30.79At3g13235820522ubiquitin family proteinF:aspartic-type endopeptidase activity;P:response to cadmium ion;C:cytosol, nucleus;MPOFVBO.I.H.G.S.X.
0.2830.30.79At1g16210838189unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMBFPVAO.I.H.G.S.X.
0.2726.20.79At5g50870835159UBC27 (ubiquitin-conjugating enzyme 27)F:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;MFOPVO.I.H.G.S.X.
0.2726.20.81At5g40930834094TOM20-4 (TRANSLOCASE OF OUTER MEMBRANE 20-4)Form of TOM20, which is a component of the TOM complex involved in transport of nuclear-encoded mitochondrial proteinsO.I.H.G.S.X.
0.2624.40.80At5g56350835735pyruvate kinase, putativeF:pyruvate kinase activity, potassium ion binding, magnesium ion binding, catalytic activity;P:glycolysis;C:cellular_component unknown;BOMPFAO.I.H.G.S.X.
0.2624.40.80At3g09840820142CDC48 (CELL DIVISION CYCLE 48)Encodes a cell division cycle protein, a member of AAA-type ATPases gene family. Expressed throughout the plant in regions of cell division. Within the cell, sub-cellular localization varies depending on the stage of the cell cycle.Mutants in which the expression of CDC48A is altered show defects in cytokinesis, cell expansion and cell differentiation.O.I.H.G.S.X.
0.2217.50.81At4g24690828571ubiquitin-associated (UBA)/TS-N domain-containing protein / octicosapeptide/Phox/Bemp1 (PB1) domain-containing proteinF:zinc ion binding;P:biological_process unknown;C:cytoplasm;MFPOBO.I.H.G.S.X.
0.2115.80.81At1g65820842893microsomal glutathione s-transferase, putativeF:glutathione transferase activity;P:biological_process unknown;C:endoplasmic reticulum, vacuole, membrane;MFPOBO.I.H.G.S.X.
0.2115.80.78At3g04780819638-Encodes a protein with little sequence identity with any other protein of known structure or function. Part of this protein shows a 42% sequence identity with the C-terminal domain of the 32-kD human thioredoxin-like protein.O.I.H.G.S.X.
0.2014.40.79At5g04410830320NAC2NAC family member, hypothetical transcriptional regulatorO.I.H.G.S.X.
0.2014.40.81At4g30390829162unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PO.I.H.G.S.X.
0.2014.40.79At2g16710816172hesB-like domain-containing proteinF:iron-sulfur cluster binding, structural molecule activity;P:iron-sulfur cluster assembly;C:unknown;OBMFPAO.I.H.G.S.X.
0.1811.40.80At4g21580828243oxidoreductase, zinc-binding dehydrogenase family proteinF:oxidoreductase activity, binding, catalytic activity, zinc ion binding;P:oxidation reduction, metabolic process;C:cellular_component unknown;BOFMPAO.I.H.G.S.X.
0.1811.40.79At5g63880836508VPS20.1F:unknown;P:vesicle-mediated transport, N-terminal protein myristoylation;C:ESCRT III complex, plasma membrane;MOFPBAVO.I.H.G.S.X.
0.1710.20.78At5g35680833541eukaryotic translation initiation factor 1A, putative / eIF-1A, putative / eIF-4C, putativeF:RNA binding, translation initiation factor activity;P:translational initiation;C:cellular_component unknown;OMAFPO.I.H.G.S.X.
0.168.80.78At2g01650814694PUX2 (PLANT UBX DOMAIN-CONTAINING PROTEIN 2)encodes a peripheral membrane protein that contains UBX domain and interacts with AtCDC48 in vitro and co-fractionates with membrane-associated but not soluble AtCDC48 in vivo.O.I.H.G.S.X.
0.157.80.79At1g80040844344unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PMOO.I.H.G.S.X.
0.146.80.80At2g35900818163unknown proteinF:molecular_function unknown;P:biological_process unknown;C:nucleus;PO.I.H.G.S.X.
0.146.80.83At3g57090824876BIGYINEncodes a protein with similarity to yeast FIS proteins. These membrane anchored proteins bind DRP proteins and function during organelle division. FIS1B is expressed ubiquitously and appears to be involved in peroxisome division.O.I.H.G.S.X.
0.135.80.79At5g52200835296unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPVO.I.H.G.S.X.
0.135.80.80At4g35860829740ATGB2 (GTP-BINDING 2)GTP-binding protein ATGB2O.I.H.G.S.X.
0.135.80.79At3g62770825452AtATG18aRequired for autophagosome formation during nutrient deprivation and senescence.O.I.H.G.S.X.
0.135.80.78At4g15940827276fumarylacetoacetate hydrolase family proteinF:catalytic activity;P:metabolic process;C:mitochondrion;BOFMAPO.I.H.G.S.X.
0.135.80.79At4g04800825817methionine sulfoxide reductase domain-containing protein / SeIR domain-containing proteinF:peptide-methionine-(S)-S-oxide reductase activity;P:biological_process unknown;C:nucleus;OBMPFAVO.I.H.G.S.X.
0.124.90.79At4g20330827781transcription initiation factor-relatedF:RNA polymerase II transcription factor activity;P:transcription initiation from RNA polymerase II promoter;C:transcription factor TFIIE complex;MFPOO.I.H.G.S.X.
0.114.10.78At1g53750841812RPT1A (REGULATORY PARTICLE TRIPLE-A 1A)26S proteasome AAA-ATPase subunit RPT1a (RPT1a) mRNA,O.I.H.G.S.X.
0.114.10.78At2g38000818378chaperone protein dnaJ-relatedF:unknown;P:unknown;C:cellular_component unknown;BOMPAFO.I.H.G.S.X.
0.103.40.79At5g53330835414-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFO.I.H.G.S.X.
0.103.40.79At5g59420836061ORP3C (OSBP(OXYSTEROL BINDING PROTEIN)-RELATED PROTEIN 3C)F:oxysterol binding;P:steroid metabolic process;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.092.80.79At3g19950821533zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVBO.I.H.G.S.X.
0.092.80.79At1g04960839346-F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PBOO.I.H.G.S.X.
0.082.30.78At1g78420844178protein binding / zinc ion bindingF:protein binding, zinc ion binding;P:N-terminal protein myristoylation;C:unknown;FPMOO.I.H.G.S.X.
0.082.30.79At2g17190816224ubiquitin family proteinF:molecular_function unknown;P:protein modification process;C:unknown;MOPFBVAO.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
44.499.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
40.199.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.999.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.699.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.199.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.199.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.199.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.099.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.899.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.699.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.599.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.399.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.699.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.699.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.599.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.899.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.599.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.699.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.299.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.199.7E-ATMX-35-raw-cel-1574334816
25.199.6E-ATMX-35-raw-cel-1574334832
21.199.6E-ATMX-35-raw-cel-1574334800
20.299.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
20.199.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.199.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.699.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
14.699.4GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.199.4GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
12.099.3GSM133957Fukuda_1-2_0B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
11.599.3GSM284393Arabidopsis GCE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.399.2GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.599.1GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
8.999.0GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
8.799.0GSM10456WT Post-Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
8.799.0GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
8.799.0GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
8.799.0GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
8.699.0GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1608GO:0030163The chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds.Link to AmiGO
0.0793GO:0043248The aggregation, arrangement and bonding together of a mature, active proteasome complex.Link to AmiGO
0.0793GO:0051788A 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 misfolded protein stimulus.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.4893203050ProteasomeLink to KEGG PATHWAY
0.023204120Ubiquitin mediated proteolysisLink to KEGG PATHWAY
0.022100980Metabolism of xenobiotics by cytochrome P450Link 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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