Co-expression analysis

Gene ID At3g23150
Gene name ETR2 (ethylene response 2)
Module size 52 genes
NF 0.14
%ile 10.4

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
1.00100.01.00At3g23150821891ETR2 (ethylene response 2)Involved in ethylene perception in ArabidopsisO.I.H.G.S.X.
0.3338.10.76At5g15120831364unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOO.I.H.G.S.X.
0.3133.80.74At5g05640830447nucleoprotein-relatedF:molecular_function unknown;P:biological_process unknown;C:membrane;VPO.I.H.G.S.X.
0.2726.20.78At1g06840837196leucine-rich repeat transmembrane protein kinase, putativeF:protein binding, protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:plasma membrane, membrane;MPOBFVAO.I.H.G.S.X.
0.2319.30.73At3g14610820689CYP72A7putative cytochrome P450O.I.H.G.S.X.
0.2319.30.74At3g55560824721AGF2 (AT-hook protein of GA feedback 2)F:unknown;P:biological_process unknown;C:chloroplast;PMBOFO.I.H.G.S.X.
0.2014.40.76At3g14230820643RAP2.2encodes a member of the ERF (ethylene response factor) subfamily B-2 of ERF/AP2 transcription factor family (RAP2.2). The protein contains one AP2 domain. There are 5 members in this subfamily including RAP2.2 AND RAP2.12.O.I.H.G.S.X.
0.1912.70.73At2g41620818760nucleoporin interacting component family proteinF:molecular_function unknown;P:transport;C:nucleolus;MFPOO.I.H.G.S.X.
0.1811.40.73At1g56145842067leucine-rich repeat family protein / protein kinase family proteinF:protein binding, protein serine/threonine kinase activity, protein kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;PMOBFVAO.I.H.G.S.X.
0.1811.40.73At4g25710828676kelch repeat-containing F-box family proteinF:molecular_function unknown;P:unknown;C:cellular_component unknown;PMABOO.I.H.G.S.X.
0.1811.40.74At1g08620837384transcription factorF:transcription factor activity;P:regulation of transcription;C:nucleus;MFPOO.I.H.G.S.X.
0.1811.40.77At2g44080819014ARL (ARGOS-LIKE)Encodes ARL, a gene similar to ARGOS involved in cell expansion-dependent organ growth. Upregulated by brassinosteroid. Acts downstream of BRI1.O.I.H.G.S.X.
0.1811.40.74At2g41500818748EMB2776Encodes LACHESIS (LIS), a protein with seven WD40 repeats. LIS is homologous to the yeast splicing factor PRP4 which is associated with the U4/U6 complex of the spliceosome. LIS is involved in a mechanism that prevents accessory cells from adopting gametic cell fate: lis mutant forms supernumerary egg cells.O.I.H.G.S.X.
0.1710.20.74At2g19580816477TET2 (TETRASPANIN2)Member of TETRASPANIN familyO.I.H.G.S.X. factor, putativeF:binding;P:mRNA processing;C:chloroplast;MFOBPAVO.I.H.G.S.X. an RS-containing Zinc knuckle protein with molecular mass of 33kDa that is localized to nuclear specks.O.I.H.G.S.X. (SPINDLY)Encodes a N-acetyl glucosamine transferase that may glycosylate other molecules involved in GA signaling. Contains a tetratricopeptide repeat region, and a novel carboxy-terminal region. SPY acts as both a repressor of GA responses and as a positive regulation of cytokinin signalling. SPY may be involved in reducing ROS accumulation in response to stress.O.I.H.G.S.X. unknown;P:biological_process unknown;C:mitochondrion, plastid;MFPBOO.I.H.G.S.X. transferase family 1 proteinF:transferase activity, transferring glycosyl groups;P:biosynthetic process;C:unknown;BOAPFMO.I.H.G.S.X. (sensitive to proton rhizotoxicity 1)Encodes a putative nuclear Cys(2)His(2)-type zinc finger protein involved in H+ and Al3+ rhizotoxicity. In mutants exposed to aluminum stress, there is no induction of AtALMT1, an malate transporter known to be involved in the mediation of aluminum toxicity.O.I.H.G.S.X. (IMPORTIN ALPHA ISOFORM 1)Encodes importin alpha involved in nuclear import. Protein interacts with Agrobacterium proteins VirD2 and VirE2. Is not individually essential for Agrobacterium-mediated root transformation, but when overexpressed can rescue the impa-4 decreased transformation susceptibility phenotype.O.I.H.G.S.X. bindingF:ATP binding;P:tRNA processing;C:unknown;BOAMFPO.I.H.G.S.X. factor Tu family proteinF:translation factor activity, nucleic acid binding, GTP binding, GTPase activity;P:biological_process unknown;C:cellular_component unknown;BOMFAPO.I.H.G.S.X. (ARF GAP-like zinc finger-containing protein ZiGA4)A member of ARF GAP domain (AGD), A thaliana has 15 members, grouped into four classes. AGD14 belongs to the class 4, together with AGD15.O.I.H.G.S.X. (ETHYLENE RESPONSE SENSOR 1)Ethylene receptor, subfamily 1. Has histidine kinase activity.O.I.H.G.S.X. recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOFPBVAO.I.H.G.S.X. (DAMAGED DNA BINDING PROTEIN 1A)Structurally similar to damaged DNA binding proteins.DDB1a is part of a 350 KDa nuclear localized DET1 protein complex. This complex may physically interact with histone tails and while bound to chromatin- repress transcription of genes involved in photomorphogenesis.O.I.H.G.S.X. (AUXIN RESPONSE FACTOR 19)Encodes an auxin response factor that contains the conserved VP1-B3 DNA-binding domain at its N-terminus and the Aux/IAA-like domains III and IV present in most ARFs at its C-terminus. The protein interacts with IAA1 (yeast two hybrid) and other auxin response elements such as ER7 and ER9 (yeast one hybrid). ARF19 protein can complement many aspects of the arf7 mutant phenotype and , together with ARF7, is involved in the response to ethylene. In the arf7 arf19 double mutant, several auxin-responsive genes (e.g. IAA5, LBD16, LBD29 and LBD33) are no longer upregulated by auxin.O.I.H.G.S.X. unknown;P:biological_process unknown;C:cellular_component unknown;OMFBPAO.I.H.G.S.X. protein-relatedF:molecular_function unknown;P:biological_process unknown;C:unknown;OMPFBO.I.H.G.S.X. transferase, putativeF:rRNA methyltransferase activity, rRNA (adenine-N6,N6-)-dimethyltransferase activity, rRNA (adenine) methyltransferase activity;P:rRNA modification, rRNA processing;C:cellular_component unknown;BOMAFPO.I.H.G.S.X. a endoribonuclease/protein kinase IRE1-like protein that is predicted to form a type I transmembrane protein structure and contain kinase/endoribonuclease domains at their C-terminal halves. The transcript levels for several ER-stress responsive genes, including six protein disulfide isomerases (PDIs), BiP2, and AtbZIP60 are not affected in ire1-2 null mutants.O.I.H.G.S.X. (STRUWWELPETER)encodes a protein with similarities to subunits of the Mediator complex, required for RNA polymerase II recruitment at target promoters in response to specific activators. Lines carrying loss of function mutations in the gene have reduced cell numbers in aerial organs. On the other hand, lines overexpressing the gene have increased number of small cells in clusters, suggesting cell division is more unsynchronized in the overexpressors.O.I.H.G.S.X. (ASPARTATE AMINOTRANSFERASE 2)Nitrogen metabolism. Major cytosolic isoenzyme controlling aspartate biosynthesis in the light.O.I.H.G.S.X. phosphoribosyltransferase, putative / UMP pyrophosphorylase, putative / UPRTase, putativeF:uracil phosphoribosyltransferase activity, phosphotransferase activity, alcohol group as acceptor, kinase activity, ATP binding;P:biosynthetic process, metabolic process;C:unknown;BOMPFAVO.I.H.G.S.X. family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X. interacting factor (NIF) family proteinF:phosphatase activity;P:biological_process unknown;C:cellular_component unknown;MOFPBVO.I.H.G.S.X. (DegP protease 7)Encodes a putative DegP protease.O.I.H.G.S.X. checkpoint family proteinF:unknown;P:mitotic cell cycle checkpoint;C:unknown;MOBFPAVO.I.H.G.S.X. bindingF:nucleotide binding;P:biological_process unknown;C:cellular_component unknown;MBFOPAO.I.H.G.S.X. of Cyclic nucleotide gated channel familyO.I.H.G.S.X. of Cyclic nucleotide gated channel familyO.I.H.G.S.X. protein, putativeF:protein binding, transporter activity, zinc ion binding;P:intracellular protein transport, transport, ER to Golgi vesicle-mediated transport;C:COPII vesicle coat;MFOPO.I.H.G.S.X. (VARICOSE-RELATED)F:nucleotide binding;P:unknown;C:cellular_component unknown;MBOFPAO.I.H.G.S.X. repeat-containing F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;MPBOAFVO.I.H.G.S.X. a hemoglobin (Hb) with a central domain similar to the 'truncated Hbs of bacteria, protozoa and fungi. The 3D structure of these types of Hbs is a 2-on-2 arrangement of alpha-helices as opposed to the 3-on-3 arrangement of the standard globin fold. This type of Hb is not found in animals or yeast.O.I.H.G.S.X. family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X. unknown;P:biological_process unknown;C:chloroplast;OMFBPO.I.H.G.S.X. metal ion binding / metalloendopeptidase/ zinc ion bindingF:metalloendopeptidase activity, catalytic activity, zinc ion binding, metal ion binding;P:proteolysis;C:cellular_component unknown;MOBFPVAO.I.H.G.S.X. finger (FYVE type) family proteinF:phosphoinositide binding;P:signal transduction;C:unknown;MFOPBVAO.I.H.G.S.X. orange family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;MFOPBO.I.H.G.S.X., 2OG-Fe(II) oxygenase family proteinF:oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, oxidoreductase activity, iron ion binding;P:protein metabolic process, peptidyl-proline hydroxylation to 4-hydroxy-L-proline;C:unknown;MOPBFVO.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
56.599.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
55.599.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
54.399.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
54.299.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
52.599.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.199.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
50.199.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
49.699.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.599.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.799.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
45.799.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.499.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.699.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.399.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
39.299.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.099.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.799.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.799.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.999.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
28.999.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.299.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
22.499.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
21.999.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
20.499.6GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.299.6GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
18.699.5GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.699.5GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.299.4GSM13784Cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
12.699.3GSM67086Arabidopsis_Stigma02GSE3056Arabidopsis Pollination StudyLink to GEO
11.399.3GSM67087Arabidopsis_Stigma03GSE3056Arabidopsis Pollination StudyLink to GEO
11.199.2GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.199.2GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.199.1GSM133719Deeken_A-1-Deeke-Tum_SLD_REP1GSE5725Agrobacterium tumefaciens-induced tumour development of Arabidopsis thalianaLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0632GO:0010105Any process that stops or prevents ethylene (ethene) mediated signaling.Link to AmiGO
0.0462GO:0000398The joining together of exons from one or more primary transcripts of nuclear messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced.Link to AmiGO
0.0381GO:0006987The conversion of a specific protein, possessing protein kinase and endoribonuclease activities, to an active form as a result of signaling via the unfolded protein response.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.032100950Isoquinoline alkaloid biosynthesisLink to KEGG PATHWAY
0.026100350Tyrosine metabolismLink to KEGG PATHWAY
0.022100400Phenylalanine, tyrosine and tryptophan biosynthesisLink to KEGG PATHWAY

Inter-species module comparison

Select a plant to compare co-expressed genes between species.

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