Co-expression analysis

Gene ID At4g03760
Gene name transposable element gene
Module size 47 genes
NF 0.14
%ile 11.0



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
0.8089.81.00At4g037603770477transposable element genepseudogene of unknown proteinO.I.H.G.S.X.
0.3643.60.66At3g323003769265transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.2522.60.67At1g65350842845UBQ13polyubiquitin gene,Columbia ecotype revealed that the gene contained a 3.9-kb insertion in the coding region from mitochondrial DNA.O.I.H.G.S.X.
0.2014.40.63At4g17700827491unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.1912.70.64At1g71420843483pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POFMO.I.H.G.S.X.
0.1912.70.63At2g168403767894transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.1912.70.64At5g28090832883unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknownO.I.H.G.S.X.
0.1811.40.65At5g28930833018transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.1811.40.63At4g077203770346-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.1811.40.64At5g304703770969transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.1710.20.69At5g61920836313unknown proteinF:unknown;P:biological_process unknown;C:chloroplast;MOFBPAVO.I.H.G.S.X.
0.1710.20.63At2g27395817285-pseudogene of cysteine protease-relatedO.I.H.G.S.X.
0.1710.20.66At4g09470826531-Encodes a ECA1 gametogenesis related family protein [pseudogene]O.I.H.G.S.X.
0.168.80.65At1g44980841063pectinesterase family proteinF:pectinesterase activity;P:cell wall modification;C:cell wall, plant-type cell wall;PBFMO.I.H.G.S.X.
0.157.80.64At1g77405844077-F:unknown;P:biological_process unknown;C:unknown;POMFBAO.I.H.G.S.X.
0.157.80.66At2g20380816557kelch repeat-containing F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.146.80.64At1g28460839745AGL59 (AGAMOUS-LIKE 59)F:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PMFOO.I.H.G.S.X.
0.146.80.64At1g06140837123pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFO.I.H.G.S.X.
0.146.80.65At1g15830838153unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MBOPFVAO.I.H.G.S.X.
0.146.80.63At2g02440814774unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.146.80.66At2g39160818501unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.146.80.64At1g44085841011glycine-rich proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMBOFO.I.H.G.S.X.
0.146.80.63At3g45560823698zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFO.I.H.G.S.X.
0.146.80.63At4g28620828980ATM2 (ABC TRANSPORTER OF THE MITOCHONDRION 2)half-molecule ABC transporter ATM2O.I.H.G.S.X.
0.146.80.64At2g30120817564unknown proteinF:unknown;P:unknown;C:unknown;POMBAFO.I.H.G.S.X.
0.135.80.64At5g56770835779unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PO.I.H.G.S.X.
0.135.80.65At3g08660820013phototropic-responsive protein, putativeF:protein binding, signal transducer activity;P:response to light stimulus, N-terminal protein myristoylation;C:chloroplast;PMO.I.H.G.S.X.
0.135.80.66At1g08270837347-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPFAO.I.H.G.S.X.
0.135.80.65At4g04370825757pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:cellular_component unknown;POFMO.I.H.G.S.X.
0.124.90.65At4g22370828332unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PO.I.H.G.S.X.
0.124.90.63At1g43570840940transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.124.90.64At1g74630843802pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:endomembrane system;POMFBO.I.H.G.S.X.
0.124.90.64At1g22720838878wall-associated kinase, putativeF:protein tyrosine kinase activity, protein kinase activity, kinase activity, calcium ion binding, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;PMOFVBO.I.H.G.S.X.
0.124.90.63At2g37730818350fringe-related proteinF:transferase activity, transferring glycosyl groups;P:biological_process unknown;C:cellular_component unknown;PFMOO.I.H.G.S.X.
0.114.10.64At1g54180841858BRX-LIKE3 (BREVIS RADIX-LIKE 3)Belongs to five-member BRX gene family. Arabidopsis BRX genes share high levels of similarity among each others, with several conserved domains. The most distinct is BRX domain - highly conserved in all BRX genes among distantly related species. This protein-protein interaction domain is required and sufficient for BRX activity.O.I.H.G.S.X.
0.114.10.65At2g46915819305unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBOMO.I.H.G.S.X.
0.114.10.64At5g58890836006AGL82 (AGAMOUS-LIKE 82)F:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PMFOO.I.H.G.S.X.
0.114.10.63At1g03510839478pentatricopeptide (PPR) repeat-containing proteinF:binding;P:biological_process unknown;C:cellular_component unknown;POMFBO.I.H.G.S.X.
0.103.40.63At5g02990831714kelch repeat-containing F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;MPOBVFAO.I.H.G.S.X.
0.103.40.64At2g19380816456RNA recognition motif (RRM)-containing proteinF:RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding;P:unknown;C:intracellular;MPOFBVO.I.H.G.S.X.
0.103.40.64At2g21040816638C2 domain-containing proteinC2 domain-containing protein. Possible pseudogene of AT2G20990.O.I.H.G.S.X.
0.092.80.64At5g67000836835DNA binding / transcription factorencodes a member of the ERF (ethylene response factor) subfamily B-6 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 12 members in this subfamily including RAP2.11.O.I.H.G.S.X.
0.092.80.63At5g290403770873-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.092.80.64At5g11180830988ATGLR2.6member of Putative ligand-gated ion channel subunit familyO.I.H.G.S.X.
0.071.90.65At1g51910841618protein kinase family proteinF:in 6 functions;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVAO.I.H.G.S.X.
0.061.40.65At1g55250841968HUB2 (HISTONE MONO-UBIQUITINATION 2)Encodes one of two orthologous E3 ubiquitin ligases in Arabidopsis that are involved in monoubiquitination of histone H2B.O.I.H.G.S.X.
0.061.40.63At1g12100837762lipid bindingF:lipid binding;P:lipid transport;C:endomembrane system;PO.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
51.799.8GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
47.499.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.299.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.399.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.699.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.699.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.599.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.299.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.199.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.399.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.299.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
37.399.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.299.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.999.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.899.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
36.199.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.699.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.899.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.899.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.299.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.499.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.399.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.399.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
24.099.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
23.999.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.199.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
22.399.6GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
18.299.5GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
16.599.5GSM311289Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
16.299.5GSM133773Lindsey_1-25_torpedo-meristem_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
14.999.4GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.899.4GSM311290Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
13.699.4GSM266667Arabidopsis, root cells, columella root cap, -Fe, replicate 2GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
13.299.4GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
12.399.3GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.199.3GSM133763Lindsey_1-15_torpedo-cotyledon_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.699.3GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.399.3GSM266668Arabidopsis, root cells, columella root cap, -Fe, replicate 3GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
11.199.2GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
10.699.2GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.099.2GSM184892Arabidopsis, root cells, columella root cap, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.999.1GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.499.1GSM266666Arabidopsis, root cells, columella root cap, -Fe, replicate 1GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
9.199.1GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.099.1GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0411GO:0010390The modification of histones by addition of a single ubiquitin moiety.Link to AmiGO
0.0391GO:0033523The modification of histone H2B by addition of ubiquitin groups.Link to AmiGO
0.0381GO:0010162The process by which a dormant state is induced, maintained and broken in a seed. Dormancy is characterized by a suspension of physiological activity that can be reactivated.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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