Co-expression analysis

Gene ID At5g63410
Gene name leucine-rich repeat transmembrane protein kinase, putative
Module size 36 genes
NF 0.19
%ile 16.8

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
1.00100.01.00At5g63410836460leucine-rich repeat transmembrane protein kinase, putativeF:protein serine/threonine kinase activity, protein kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:endomembrane system;PMOBFVAO.I.H.G.S.X.
0.2830.30.89At2g13560815842malate oxidoreductase, putativeF:oxidoreductase activity, acting on NADH or NADPH, NAD or NADP as acceptor, malic enzyme activity, ATP binding;P:response to salt stress, malate metabolic process;C:mitochondrion, chloroplast;BOMPFAO.I.H.G.S.X.
0.2624.40.87At3g06440819820galactosyltransferase family proteinF:transferase activity, transferring hexosyl groups, transferase activity, transferring glycosyl groups;P:protein amino acid glycosylation;C:membrane;MPOFO.I.H.G.S.X.
0.2420.70.87At1g10350837574DNAJ heat shock protein, putativeF:unfolded protein binding, heat shock protein binding;P:protein folding;C:cellular_component unknown;OBMFPAVO.I.H.G.S.X.
0.2420.70.87At1g80400844380zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVBO.I.H.G.S.X.
0.2319.30.87At5g38220833804hydrolaseF:hydrolase activity;P:biological_process unknown;C:cellular_component unknown;OBMPFVO.I.H.G.S.X.
0.2319.30.88At1g74680843807exostosin family proteinF:catalytic activity;P:biological_process unknown;C:endomembrane system, membrane;POMBFO.I.H.G.S.X.
0.2319.30.89At4g15415827211ATB' GAMMAB' regulatory subunit of PP2A (AtB'gamma)O.I.H.G.S.X.
0.2319.30.88At1g75420843878glycosyl transferase family 1 proteinF:transferase activity, transferring glycosyl groups;P:biosynthetic process;C:cellular_component unknown;BOAMPFO.I.H.G.S.X.
0.2217.50.88At4g19670827711zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;MPOFBO.I.H.G.S.X.
0.2217.50.88At4g18060827531clathrin bindingF:clathrin binding;P:unknown;C:unknown;MOFPBO.I.H.G.S.X.
0.2217.50.87At1g11440837686-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPVBAO.I.H.G.S.X.
0.2115.80.88At1g12820837838AFB3 (AUXIN SIGNALING F-BOX 3)F:auxin binding, ubiquitin-protein ligase activity;P:stamen development, pollen maturation, response to molecule of bacterial origin;C:cellular_component unknown;PMFOBO.I.H.G.S.X.
0.2115.80.88At3g05010819662transmembrane protein, putativeF:molecular_function unknown;P:biological_process unknown;C:membrane;MPBOO.I.H.G.S.X.
0.2014.40.88At2g30980817649ASKdZeta (Arabidopsis SHAGGY-related protein kinase dZeta)Encodes a GSK3-like protein kinase. This protein can interact with the BZR1 protein involved in brassinosteroid-mediated signaling in a Y2H assay and promotes BZR1 phosphorylation in protoplasts.O.I.H.G.S.X.
0.2014.40.87At1g04400839529CRY2 (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.
0.1912.70.88At4g37880829944protein binding / zinc ion bindingF:protein binding, zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.1912.70.87At5g05170830399CEV1 (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.
0.1912.70.88At5g55910835689D6PK (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.
0.1811.40.88At2g30710817622RabGAP/TBC domain-containing proteinF:RAB GTPase activator activity;P:regulation of Rab GTPase activity;C:intracellular;MOFPO.I.H.G.S.X.
0.1811.40.88At3g29270822584ubiquitin-protein ligaseF:ubiquitin-protein ligase activity;P:unknown;C:unknown;MPOO.I.H.G.S.X.
0.1811.40.87At5g09670830826loricrin-relatedF:molecular_function unknown;P:biological_process unknown;C:unknown;MOPBFVO.I.H.G.S.X.
0.1710.20.88At1g17730838349VPS46.1 (VACUOLAR PROTEIN SORTING 46.1)F:unknown;P:vesicle-mediated transport;C:cellular_component unknown;MPFOAO.I.H.G.S.X. proteinF:unknown;P:unknown;C:endomembrane system;PO.I.H.G.S.X. (SUPPRESSOR OF K+ TRANSPORT GROWTH DEFECT1)Encodes a SKD1 (Suppressor of K+ Transport Growth Defect1) homolog. Localized to the cytoplasm and to multivesicular endosomes. Involved in multivesicular endosome function.O.I.H.G.S.X. family proteinF:unknown;P:unknown;C:mitochondrion, endoplasmic reticulum;MPOO.I.H.G.S.X. (EXTRA-LARGE G-PROTEIN 1)encodes a novel G-alpha protein that shares similarity to plant, yeast, and animal G-alpha proteins at the C-terminus. It contains an N-terminus that is as large as the C-terminus, is a member of a small family, and is expressed in all tissues examined, including roots, leaves, stems, flowers, and fruits.O.I.H.G.S.X. hydrolase family 3 proteinF:xylan 1,4-beta-xylosidase activity, hydrolase activity, hydrolyzing O-glycosyl compounds;P:carbohydrate metabolic process;C:plasma membrane, vacuole;BOFPAMO.I.H.G.S.X. antiporter activity, sodium ion transmembrane transporter activity;P:lithium ion transport, sodium ion transport;C:integral to membrane;BMOPFAO.I.H.G.S.X. (GLYOXALASE 2-1)glyoxalase II mitochondrial isozyme (Glx2-1) mRNA, nuclearO.I.H.G.S.X. (ARABIDOPSIS THALIANA BETA-1,2-XYLOSYLTRANSFERASE)Encodes a beta-1,2-xylosyltransferase that is glycosylated at two positions.O.I.H.G.S.X. (sensitive to hot temperatures 5)Encodes a glutathione-dependent formaldehyde dehydrogenase (also known as class III type alcohol dehydrogenase) reduces S-nitrosoglutathione (GSNO), the condensation product of glutathione and NO, that is a naturally occurring NO reservoir and also a reactive nitrogen intermediate. Gene expression is reduced by wounding and induced by salicylic acid. Is required for the acclimation of plants to high temperature and for fertility.O.I.H.G.S.X. (ECTOPICALLY PARTING CELLS)A member of the Glycosyltransferase Family 64, homologous to Poplar cambium-expressed GT64 gene. The EPC1 protein plays a critical role during plant development in maintaining the integrity of organs via cell-cell adhesion, thereby providing mechanical strength and facilitating the movement of metabolites throughout the plant.O.I.H.G.S.X. transporter-relatedF:unknown;P:unknown;C:unknown;MOFPABO.I.H.G.S.X. proteinF:molecular_function unknown;P:biological_process unknown;C:Golgi apparatus;PO.I.H.G.S.X. kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MBOPFVAO.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
59.999.8GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
51.299.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
49.399.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
46.899.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.799.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.199.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational 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
34.299.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.099.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.099.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.799.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.599.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.499.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.399.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.899.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.799.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.299.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.099.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.499.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.899.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.199.6GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.299.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.099.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
22.399.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.499.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
17.799.5GSM133721Deeken_A-1-Deeke-Tum_SLD_REP2GSE5725Agrobacterium tumefaciens-induced tumour development of Arabidopsis thalianaLink to GEO
16.399.5GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
13.699.4GSM134300Penfield_1-2_endosperm-control_Rep2_ATH1GSE5751The early post-germinative embryo and endosperm transcriptomes in ArabidopsisLink to GEO
13.399.4GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.199.4GSM134301Penfield_1-3_endosperm-control_Rep3_ATH1GSE5751The early post-germinative embryo and endosperm transcriptomes in ArabidopsisLink to GEO
12.999.3GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.399.3GSM184922Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.799.2GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.699.2GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.199.2GSM131317AtGen_6-3321_Saltstress-Roots-3.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
9.499.1GSM134299Penfield_1-1_endosperm-control_Rep1_ATH1GSE5751The early post-germinative embryo and endosperm transcriptomes in ArabidopsisLink to GEO
9.399.1GSM62704arf6 arf8 flowers_stage 13-14GSE2848Auxin Response Factor mediated flower gene expressionLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0541GO:0031204The process by which a protein translocates through the ER membrane posttranslationally.Link to AmiGO
0.0541GO:0046292The chemical reactions and pathways involving formaldehyde (methanal, H2C=O), a colorless liquid or gas with a pungent odor, commonly used as a fixative or an antibacterial agent.Link to AmiGO
0.0531GO:0000578The establishment, maintenance and elaboration of a pattern along a line or a point in an embryo.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.040204144EndocytosisLink to KEGG PATHWAY
0.036100980Metabolism of xenobiotics by cytochrome P450Link to KEGG PATHWAY
0.033100350Tyrosine metabolismLink to KEGG PATHWAY

Inter-species module comparison

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

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