Co-expression analysis

Gene ID At1g72180
Gene name leucine-rich repeat transmembrane protein kinase, putative
Module size 40 genes
NF 0.25
%ile 26.1

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
1.00100.01.00At1g72180843550leucine-rich repeat transmembrane protein kinase, putativeF:protein serine/threonine kinase activity, kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:cellular_component unknown;MPOBFVAO.I.H.G.S.X.
0.3948.40.86At1g65960842908GAD2 (GLUTAMATE DECARBOXYLASE 2)glutamate decarboxylase (GAD2)O.I.H.G.S.X.
0.3846.70.87At5g15410831393DND1 (DEFENSE NO DEATH 1)'defense, no death' gene (DND1) encodes a mutated cyclic nucleotide-gated cation channel; Same as CNGC2 (article ID 229): Cyclic nucleotide gated channel, activated by cAMP, conducts K+ and other monovalent cations but excludes Na+, does not contain the GYG amino acid sequence found in other channels with this conductivity profile. Conducts Ca2+ into cells which is linked to the generation of NO and the NO signaling pathway involved in the innate immune response to pathogens.O.I.H.G.S.X.
0.3846.70.88At4g04340825754early-responsive to dehydration protein-related / ERD protein-relatedF:unknown;P:unknown;C:plasma membrane;FPMOBO.I.H.G.S.X.
0.3745.00.86At1g31420840032FEI1 (FEI 1)Encodes a plasma membrane localized leucine-rich repeat receptor kinase that is involved in cell wall elongation. Loss of function mutations of FEI1 and FEI2 exhibit defects in root and hypocotyl cell elongation. Double mutants are defective in cell wall biosynthesis and have thick hypocotyls, and short, thick roots.O.I.H.G.S.X.
0.3643.60.87At3g56050824771protein kinase family proteinF:protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:unknown;PMOBFVAO.I.H.G.S.X.
0.3541.60.86At5g33280833300chloride channel-like (CLC) protein, putativeF:anion channel activity, voltage-gated chloride channel activity;P:chloride transport;C:intracellular, membrane;BMOFPAO.I.H.G.S.X.
0.3541.60.87At1g48450841266unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBOO.I.H.G.S.X.
0.3541.60.86At1g69390843271ATMINE1 (Arabidopsis homologue of bacterial MinE 1)Encodes an Arabidopsis homologue of the bacterial MinE topological specificity factor ensuring correct division site placement. It is an essential integral component of the plastid division machinery.O.I.H.G.S.X.
0.3439.80.87At3g60320825203DNA bindingF:DNA binding;P:biological_process unknown;C:cellular_component unknown;OMPFBVAO.I.H.G.S.X.
0.3338.10.87At2g42590818859GRF9 (GENERAL REGULATORY FACTOR 9)14-3-3 gene. Binds calcium and displays induced structural changes.O.I.H.G.S.X.
0.3235.70.86At1g54520841894unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPOMO.I.H.G.S.X.
0.3235.70.88At5g22830832346ATMGT10 (MAGNESIUM (MG) TRANSPORTER 10)putative Mg(2+) transport proteinO.I.H.G.S.X.
0.3235.70.86At5g48590834916unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBOO.I.H.G.S.X.
0.3235.70.86At1g73470843682unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPO.I.H.G.S.X.
0.3032.10.86At1g67280843048lactoylglutathione lyase, putative / glyoxalase I, putativeF:lactoylglutathione lyase activity, metal ion binding;P:response to cold, carbohydrate metabolic process;C:thylakoid, thylakoid lumen, stromule, chloroplast, chloroplast stroma;BOMFPAO.I.H.G.S.X.
0.3032.10.86At3g58010824970unknown proteinF:unknown;P:biological_process unknown;C:thylakoid, thylakoid lumen, chloroplast thylakoid membrane, chloroplast, plastoglobule;PFOO.I.H.G.S.X.
0.2930.30.88At2g28800817429ALB3 (ALBINO 3)member of Chloroplast membrane protein ALBINO3 familyO.I.H.G.S.X.
0.2624.40.86At2g42320818833nucleolar protein gar2-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BMOFPVAO.I.H.G.S.X.
0.2624.40.87At5g03910830269ATATH12member of ATH subfamilyO.I.H.G.S.X.
0.2420.70.86At1g32160840108unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBOO.I.H.G.S.X.
0.2319.30.87At1g05850837095POM1 (POM-POM1)Encodes an endo chitinase-like protein AtCTL1. Essential for tolerance to heat, salt and drought stresses. Also involved in root hair development, cell expansion and response to cytokinin. Allelic to erh2. 11 alleles described in Hauser (1995). Mutant is defective in acquired thermotolerance, appears semidwarf throughout its life cycle and has extra lateral branches. There are two EMS alleles. Expression of AtHSP101 is not affected in the mutants.O.I.H.G.S.X.
0.2319.30.86At4g35450829697AKR2 (ANKYRIN REPEAT-CONTAINING PROTEIN 2)Involved in targeting of chloroplast outer membrane proteins to the chloroplast. Double mutants of AKR2A and the highly homologous AKR2B have yellow leaves, significantly reduced chloroplast proteins, and no thylakoid membranes.O.I.H.G.S.X.
0.2217.50.86At1g65260842833PTAC4 (PLASTID TRANSCRIPTIONALLY ACTIVE4)F:unknown;P:biological_process unknown;C:in 8 components;BOMVFPAO.I.H.G.S.X.
0.2115.80.86At2g35490818114plastid-lipid associated protein PAP, putativeF:structural molecule activity;P:biological_process unknown;C:thylakoid, chloroplast thylakoid membrane, chloroplast, plastoglobule;PBOMO.I.H.G.S.X.
0.2115.80.87At1g30910839975molybdenum cofactor sulfurase family proteinF:molybdenum ion binding, Mo-molybdopterin cofactor sulfurase activity, pyridoxal phosphate binding, catalytic activity;P:biological_process unknown;C:chloroplast;BMFOPAO.I.H.G.S.X.
0.2014.40.86At5g03880831679electron carrierF:electron carrier activity;P:cell redox homeostasis;C:chloroplast thylakoid membrane, chloroplast;BOPAFMO.I.H.G.S.X.
0.2014.40.86At2g30950817646VAR2 (VARIEGATED 2)Metalloprotease that functions in thylakoid membrane biogenesis. Involved in the repair of PSII following damaged incurred during photoinhibition. Forms a complex with VAR1. Mutants show a variegated phenotype, which decreases during development. Transcript and protein levels increase with light intensity.O.I.H.G.S.X.
0.1912.70.86At2g39010818487PIP2E (PLASMA MEMBRANE INTRINSIC PROTEIN 2E)F:water channel activity;P:transport, response to nematode;C:plasma membrane, membrane;BPMOFAVO.I.H.G.S.X.
0.1811.40.86At5g60920836213COB (COBRA)Encodes a glycosylphosphatidylinositol-anchored protein localized primarily in the plasma membrane of the longitudinal sides of root cells. Necessary for oriented cell expansion in Arabidopsis. Cob mutants have abnormal roots that expand radially rather than longitudinally under certain growth conditions.O.I.H.G.S.X. (CLOROPLASTOS ALTERADOS 1)Encodes a protein with 1-deoxyxylulose 5-phosphate synthase activity involved in the MEP pathway. It is essential for chloroplast development in ArabidopsisO.I.H.G.S.X. proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;OBPO.I.H.G.S.X. kinase family proteinF:protein serine/threonine kinase activity, 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. helix-loop-helix (bHLH) family proteinF:transcription factor activity, DNA binding;P:regulation of transcription;C:cytosol;PMOFBAO.I.H.G.S.X. (ACCLIMATION OF PHOTOSYNTHESIS TO ENVIRONMENT 2)mutant has Altered acclimation responses; Chloroplast Triose Phosphate TranslocatorO.I.H.G.S.X. (CRYPTOCHROME 2)Blue light receptor mediating blue-light regulated cotyledon expansion and flowering time. Positive regulator of the flowering-time gene CONSTANS. This gene possesses a light-induced CNT2 N-terminal homodimerisation domain.Involved in blue-light induced stomatal opening. Involved in triggering chromatin decondensation. An 80-residue motif (NC80) is sufficient to confer CRY2's physiological function. It is proposed that the PHR domain and the C-terminal tail of the unphosphorylated CRY2 form a "closed" conformation to suppress the NC80 motif in the absence of light. In response to blue light, the C-terminal tail of CRY2 is phosphorylated and electrostatically repelled from the surface of the PHR domain to form an "open" conformation, resulting in derepression of the NC80 motif and signal transduction to trigger photomorphogenic responses. Cry2 phosphorylation and degradation both occur in the nucleus.O.I.H.G.S.X.;P:biological_process unknown;C:unknown;POMFBO.I.H.G.S.X. of two genes (with ATPC2) encoding the gamma subunit of Arabidopsis chloroplast ATP synthase.O.I.H.G.S.X. (CONSTITUTIVE EXPRESSION OF VSP 1)Encodes a cellulose synthase isomer. CESA3 mutants have cellulose defect in the primary cell wall. Multiple lines of evidence suggest that CESA3, along with CESA1 and CESA6 are present in the same plasma membrane complex for cellulose biosynthesis.O.I.H.G.S.X. (D6 PROTEIN KINASE)D6PK is a protein kinase involved that plays a role in polar auxin transport. Most likely acts redundantly with the related proteins: D6PKL1,D6PKL2,and D6PKL3. PIN1 is a target of D6PK phosphorylation.O.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
73.499.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
40.599.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.599.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.099.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.799.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.599.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.499.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.999.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
31.199.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.799.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.399.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.299.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.199.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.899.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.899.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.799.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.299.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.099.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.799.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.199.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.899.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.899.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
17.499.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.299.4GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.299.4GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.799.4GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.099.2GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1033GO:0010027A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the thylakoid membrane.Link to AmiGO
0.0692GO:0009825The process by which a cell irreversibly increases in size in two or three [spatial] dimensions or along two or three axes.Link to AmiGO
0.0491GO:0016050A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a vesicle.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.030103060Protein exportLink to KEGG PATHWAY
0.029104712Circadian rhythm - plantLink to KEGG PATHWAY
0.025100900Terpenoid backbone biosynthesisLink to KEGG PATHWAY

Inter-species module comparison

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

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