Co-expression analysis

Gene ID At1g06840
Gene name leucine-rich repeat transmembrane protein kinase, putative
Module size 21 genes
NF 0.12
%ile 8.4



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
0.6478.91.00At1g06840837196leucine-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.
0.4152.40.89At1g74740843813CPK30 (CALCIUM-DEPENDENT PROTEIN KINASE 30)member of Calcium Dependent Protein KinaseO.I.H.G.S.X.
0.3133.80.86At1g21450838743SCL1 (SCARECROW-LIKE 1)Encodes a scarecrow-like protein (SCL1). Member of GRAS gene family.O.I.H.G.S.X.
0.2319.30.86At1g34370840339STOP1 (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.
0.2115.80.87At5g35200833474epsin N-terminal homology (ENTH) domain-containing proteinF:phospholipid binding, clathrin binding, binding, phosphatidylinositol binding;P:clathrin coat assembly;C:plasma membrane;MPFOBO.I.H.G.S.X.
0.1811.40.86At4g02590828126UNE12 (unfertilized embryo sac 12)F:transcription factor activity, DNA binding;P:double fertilization forming a zygote and endosperm, regulation of transcription;C:nucleus;PMFO.I.H.G.S.X.
0.1811.40.87At4g24400828542CIPK8 (CBL-INTERACTING PROTEIN KINASE 8)Encodes a CBL (calcineurin B-like calcium sensor proteins) -interacting serine/threonine protein kinase.O.I.H.G.S.X.
0.1710.20.86At1g26440839185ATUPS5 (ARABIDOPSIS THALIANA UREIDE PERMEASE 5)uptake assays in a yeast mutant indicated this splice variant is not a cellular importer for allantoin, uracil or xanthineO.I.H.G.S.X.
0.135.80.86At3g04670819625WRKY39member of WRKY Transcription Factor; Group II-dO.I.H.G.S.X.
0.114.10.85At2g43680818970IQD14F:calmodulin binding;P:unknown;C:plasma membrane;MBFOPVAO.I.H.G.S.X.
0.114.10.85At1g07630837276PLL5Encodes a protein phosphatase 2C like gene, similar to POL. Involved in leaf development. Knockout mutants have abnormally shaped leaves.O.I.H.G.S.X.
0.114.10.86At1g19220838505ARF19 (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.
0.103.40.85At2g17520816258IRE1AEncodes 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.
0.103.40.87At3g55270824693MKP1 (MITOGEN-ACTIVATED PROTEIN KINASE PHOSPHATASE 1)MAP kinase phosphatase (MKP1)O.I.H.G.S.X.
0.103.40.86At2g30740817625serine/threonine protein kinase, putativeF:protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;MPOBFVAO.I.H.G.S.X.
0.092.80.85At1g04440839520CKL13 (CASEIN KINASE LIKE 13)F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MOPBFVAO.I.H.G.S.X.
0.092.80.85At3g19190821453-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.082.30.87At2g18090816321PHD finger family protein / SWIB complex BAF60b domain-containing protein / GYF domain-containing proteinF:protein binding, DNA binding, zinc ion binding;P:regulation of transcription, DNA-dependent;C:unknown;MPBOFO.I.H.G.S.X.
0.061.40.86At5g12200831093dihydropyrimidinase / DHPase / dihydropyrimidine amidohydrolase / hydantoinase (PYD2)F:hydrolase activity, hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, dihydropyrimidinase activity;P:unknown;C:endomembrane system;OBMAFPO.I.H.G.S.X.
0.051.10.86At3g16857820940ARR1 (ARABIDOPSIS RESPONSE REGULATOR 1)Encodes an Arabidopsis response regulator (ARR) protein that acts in concert with other type-B ARRs in the cytokinin signaling pathway.O.I.H.G.S.X.
0.040.90.85At1g21200838715transcription factorF:transcription factor activity;P:regulation of transcription;C:unknown;POMBVAFO.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
41.799.8GSM134208Murray_3-4_D7-GROWTH_Rep1_ATH1GSE5750Growth of suspension-cultured cellsLink to GEO
32.899.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.399.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.199.7GSM134206Murray_3-3_D5-GROWTH_Rep1_ATH1GSE5750Growth of suspension-cultured cellsLink to GEO
31.099.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.399.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.099.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.699.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.499.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.399.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.099.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.099.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.599.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.299.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.799.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.099.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.699.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.399.6GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.099.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.399.6GSM270853Arabidopsis cell culture, 4 h_control_rep2GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
22.699.6GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.399.6E-MEXP-1797-raw-cel-1669767958
17.199.5GSM133957Fukuda_1-2_0B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
16.499.5GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.199.5E-MEXP-1797-raw-cel-1669767976
16.099.5GSM270814Arabidopsis cell culture, 4 h_control_rep1GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
14.899.4GSM142739DH001_ATH1_A6-TCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
14.899.4GSM134202Murray_3-1_D1-GROWTH_Rep1_ATH1GSE5750Growth of suspension-cultured cellsLink to GEO
14.799.4GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
12.999.3E-MEXP-1797-raw-cel-1669767985
12.799.3E-MEXP-1138-raw-cel-1432773258
12.599.3E-MEXP-1138-raw-cel-1432773290
12.599.3GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
12.599.3GSM134204Murray_3-2_D3-GROWTH_Rep1_ATH1GSE5750Growth of suspension-cultured cellsLink to GEO
12.099.3E-MEXP-1138-raw-cel-1432773322
11.999.3E-MEXP-1797-raw-cel-1669768048
11.099.2E-MEXP-1797-raw-cel-1669767949
11.099.2E-MEXP-1797-raw-cel-1669768057
10.899.2GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.899.2GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
10.899.2GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.899.2GSM239251Columbia glabrous (C24) wild type pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
10.799.2E-ATMX-31-raw-cel-1516947882
10.599.2GSM106969opr3_OPDA_22 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
10.499.2GSM133951Murray_2-7_T12-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
10.199.2GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
8.999.0GSM133950Murray_2-6_T10-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
8.899.0E-ATMX-31-raw-cel-1516947899
8.899.0E-MEXP-1797-raw-cel-1669768066
8.799.0GSM142904WW002_ATH1_A1-willa-CON-REP2GSE6181Assembly of the cell wall pectic matrix.Link to GEO
8.699.0E-MEXP-1797-raw-cel-1669768075
8.699.0E-ATMX-31-raw-cel-1516947916

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0911GO: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
0.0911GO:0015857The directed movement of uracil, 2,4-dioxopyrimidine, into, out of, within or between cells.Link to AmiGO
0.0911GO:0042906The directed movement of xanthine into, out of, within or between cells. Xanthine (2,6-dihydroxypurine) is a purine formed in the metabolic breakdown of guanine, but is not present in nucleic acids.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.056100770Pantothenate and CoA biosynthesisLink to KEGG PATHWAY
0.053100410beta-Alanine metabolismLink to KEGG PATHWAY
0.022100240Pyrimidine metabolismLink 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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