Co-expression analysis

Gene ID At3g19020
Gene name leucine-rich repeat family protein / extensin family protein
Module size 58 genes
NF 0.68
%ile 87.8



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
0.8693.11.00At3g19020821435leucine-rich repeat family protein / extensin family proteinF:structural constituent of cell wall, protein binding;P:unknown;C:endomembrane system;MBOPFVAO.I.H.G.S.X.
0.8793.50.98At4g27580828867unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion, cell wall;OBMFPVAO.I.H.G.S.X.
0.8592.40.97At2g33420817906-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOO.I.H.G.S.X.
0.8491.90.96At1g47280841131unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.8290.90.96At3g43860823499AtGH9A4 (Arabidopsis thaliana Glycosyl Hydrolase 9A4)F:hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;PBMOFO.I.H.G.S.X.
0.8290.90.97At3g05930819762GLP8 (GERMIN-LIKE PROTEIN 8)germin-like protein (GLP8)O.I.H.G.S.X.
0.8290.90.96At2g45800819188LIM domain-containing proteinF:zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MOPFO.I.H.G.S.X.
0.8190.40.96At2g24450816981FLA3 (FASCICLIN-LIKE ARABINOGALACTAN PROTEIN 3 PRECURSOR)F:molecular_function unknown;P:N-terminal protein myristoylation;C:anchored to membrane;PBMOFVAO.I.H.G.S.X.
0.7888.60.97At2g33460817911RIC1 (ROP-INTERACTIVE CRIB MOTIF-CONTAINING PROTEIN 1)encodes a member of a novel protein family that contains contain a CRIB (for Cdc42/Rac-interactive binding) motif required for their specific interaction with GTP-bound Rop1 (plant-specific Rho GTPase). Interacts with Rop1 and is involved in pollen tube growth and function. Protein most similar to RIC3(family subgroup III). RIC1 is localized to the apical region of the plasma membrane in pollen tube and mutation analyses indicate that this localization is dependent on ROP1 binding. Gene is expressed in all tissues examined.Analysis of overexpression and loss of function mutants indicates a role in cortical microtubule organization during pavement cell morphogenesis.O.I.H.G.S.X.
0.7888.60.95At1g11770837722FAD binding / catalytic/ electron carrier/ oxidoreductaseF:electron carrier activity, oxidoreductase activity, FAD binding, catalytic activity;P:unknown;C:endomembrane system;BFPOAO.I.H.G.S.X.
0.7788.00.96At1g24520839067BCP1Male fertility gene acting on tapetum and microsporeO.I.H.G.S.X.
0.7788.00.96At4g28280828943unknown proteinF:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;PO.I.H.G.S.X.
0.7687.40.97At3g62180825391invertase/pectin methylesterase inhibitor family proteinF:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.7586.90.94At2g02140814745LCR72 (LOW-MOLECULAR-WEIGHT CYSTEINE-RICH 72)Predicted to encode a PR (pathogenesis-related) protein. Belongs to the plant defensin (PDF) family with the following members: At1g75830/PDF1.1, At5g44420/PDF1.2a, At2g26020/PDF1.2b, At5g44430/PDF1.2c, At2g26010/PDF1.3, At1g19610/PDF1.4, At1g55010/PDF1.5, At2g02120/PDF2.1, At2g02100/PDF2.2, At2g02130/PDF2.3, At1g61070/PDF2.4, At5g63660/PDF2.5, At2g02140/PDF2.6, At5g38330/PDF3.1 and At4g30070/PDF3.2.O.I.H.G.S.X.
0.7586.90.96At4g03290827993calcium-binding protein, putativeF:calcium ion binding;P:response to cold;C:nucleus;MFPOBO.I.H.G.S.X.
0.7486.10.95At3g04700819628unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7486.10.96At5g54095835496unknown proteinF:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;OBMFPVAO.I.H.G.S.X.
0.7486.10.96At3g16040820849-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOO.I.H.G.S.X.
0.7385.50.95At1g70790843416C2 domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.7385.50.95At3g52600824426AtcwINV2 (Arabidopsis thaliana cell wall invertase 2)F:hydrolase activity, hydrolyzing O-glycosyl compounds;P:sucrose catabolic process, using beta-fructofuranosidase, carbohydrate metabolic process;C:endomembrane system;BPFOMAO.I.H.G.S.X.
0.7385.50.94At4g25780828683pathogenesis-related protein, putativeF:molecular_function unknown;P:biological_process unknown;C:endomembrane system, extracellular region;MPFOBO.I.H.G.S.X.
0.7385.50.95At5g15110831363lyase/ pectate lyaseF:lyase activity, pectate lyase activity;P:biological_process unknown;C:endomembrane system;PBFOO.I.H.G.S.X.
0.7284.80.95At1g25240839107epsin N-terminal homology (ENTH) domain-containing protein / clathrin assembly protein-relatedF:phospholipid binding, clathrin binding, binding, phosphatidylinositol binding;P:clathrin coat assembly;C:clathrin coat, mitochondrion;PMFBAOO.I.H.G.S.X.
0.7284.80.95At3g17060820963pectinesterase family proteinF:pectinesterase activity;P:cell wall modification;C:endomembrane system, cell wall, plant-type cell wall;PBFMO.I.H.G.S.X.
0.7184.20.96At5g58170835929SVL5 (SHV3-LIKE 5)F:phosphoric diester hydrolase activity, glycerophosphodiester phosphodiesterase activity;P:glycerol metabolic process, lipid metabolic process;C:anchored to membrane;BPOMFO.I.H.G.S.X.
0.7083.50.96At3g26860822302-F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.7083.50.95At5g47000834746peroxidase, putativeF:xylan 1,4-beta-xylosidase activity, peroxidase activity;P:response to oxidative stress;C:endomembrane system;PFOBMO.I.H.G.S.X.
0.6982.90.95At5g16500831511protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:unknown;MOPBFVAO.I.H.G.S.X.
0.6982.90.94At5g15600831412SP1L4 (SPIRAL1-LIKE4)SPIRAL1-LIKE4 belongs to a six-member gene family in Arabidopsis; all members share high sequence similarity in amino- and carboxy-terminal regions. Regulates cortical microtubule organization. Mutant plants exhibit altered patterns of root, leaf and petal growth as a result of defective anisotropic cell expansion.O.I.H.G.S.X.
0.6982.90.94At3g19310821465phospholipase C/ phosphoric diester hydrolaseF:phospholipase C activity, phosphoric diester hydrolase activity;P:intracellular signaling cascade, lipid metabolic process;C:endomembrane system;FPOBMO.I.H.G.S.X.
0.6882.20.94At2g22180816752hydroxyproline-rich glycoprotein family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFOBVO.I.H.G.S.X.
0.6781.60.94At4g39110830066protein kinase family proteinF:kinase activity;P:protein amino acid phosphorylation;C:chloroplast;MPOBFVAO.I.H.G.S.X.
0.6579.60.95At1g10770837620invertase/pectin methylesterase inhibitor family proteinF:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.6579.60.95At5g12000831073kinaseF:kinase activity;P:protein amino acid phosphorylation;C:unknown;MPOBFVAO.I.H.G.S.X.
0.6579.60.95At3g26110822209-F:molecular_function unknown;P:unknown;C:anchored to membrane;PO.I.H.G.S.X.
0.6478.90.95At1g04540839498C2 domain-containing proteinF:unknown;P:biological_process unknown;C:membrane;PMOFBO.I.H.G.S.X.
0.6478.90.94At1g50610841483leucine-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;PMOFBVAO.I.H.G.S.X.
0.6478.90.94At4g02250827589invertase/pectin methylesterase inhibitor family proteinF:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.6378.10.94At1g03050839416epsin N-terminal homology (ENTH) domain-containing protein / clathrin assembly protein-relatedF:phospholipid binding, clathrin binding, binding, phosphatidylinositol binding;P:N-terminal protein myristoylation, clathrin coat assembly;C:clathrin coat;MOPFBVAO.I.H.G.S.X.
0.6378.10.94At1g13970837957unknown proteinF:molecular_function unknown;P:N-terminal protein myristoylation;C:unknown;POFMO.I.H.G.S.X.
0.6378.10.95At2g26450817185pectinesterase family proteinF:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:cell wall, plant-type cell wall;PBFMOO.I.H.G.S.X.
0.6378.10.94At3g62710825445glycosyl hydrolase family 3 proteinF:xylan 1,4-beta-xylosidase activity, hydrolase activity, hydrolyzing O-glycosyl compounds;P:carbohydrate metabolic process;C:endomembrane system;BOFPAMO.I.H.G.S.X.
0.6378.10.94At2g07040815274PRK2APollen receptor kinase. Coexpression of AtPRK2a with AtRopGEF12 resulted in isotropic pollen tube growth.O.I.H.G.S.X.
0.6378.10.95At3g20580821605COBL10 (COBRA-LIKE PROTEIN 10 PRECURSOR)F:unknown;P:biological_process unknown;C:anchored to membrane;PO.I.H.G.S.X.
0.6277.30.94At2g46210819228delta-8 sphingolipid desaturase, putativeF:oxidoreductase activity, oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water, iron ion binding, heme binding;P:fatty acid biosynthetic process, lipid metabolic process;C:unknown;FMOPBVAO.I.H.G.S.X.
0.6176.70.95At5g25340832606unknown proteinF:molecular_function unknown;P:unknown;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.6176.70.94At1g02000839289GAE2 (UDP-D-GLUCURONATE 4-EPIMERASE 2)UDP-D-glucuronate 4-epimeraseO.I.H.G.S.X.
0.6176.70.94At1g58120842179unknown proteinF:unknown;P:unknown;C:unknown;PO.I.H.G.S.X.
0.6176.70.94At5g18910832009protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:peroxisome;MPOBFVAO.I.H.G.S.X.
0.6075.70.94At3g06260819800GATL4 (Galacturonosyltransferase-like 4)Encodes a protein with putative galacturonosyltransferase activity.O.I.H.G.S.X.
0.5974.70.94At1g68110843139epsin N-terminal homology (ENTH) domain-containing protein / clathrin assembly protein-relatedF:phospholipid binding, clathrin binding, binding, phosphatidylinositol binding;P:clathrin coat assembly;C:clathrin coat;PMFOO.I.H.G.S.X.
0.5974.70.94At5g12180831091CPK17member of Calcium Dependent Protein KinaseO.I.H.G.S.X.
0.5873.80.94At2g31500817708CPK24member of Calcium Dependent Protein KinaseO.I.H.G.S.X.
0.5873.80.94At2g02720814801pectate lyase family proteinF:lyase activity, pectate lyase activity;P:biological_process unknown;C:endomembrane system;BPFOO.I.H.G.S.X.
0.5873.80.94At1g55560842005sks14 (SKU5 Similar 14)F:oxidoreductase activity, copper ion binding;P:unknown;C:endomembrane system;FBPMOAO.I.H.G.S.X.
0.5773.80.93At5g15140831366aldose 1-epimerase family proteinF:aldose 1-epimerase activity;P:galactose metabolic process, hexose metabolic process, carbohydrate metabolic process;C:endomembrane system;OBMFPVAO.I.H.G.S.X.
0.5773.80.95At1g10620837605protein 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:unknown;MOPBFVAO.I.H.G.S.X.
0.5773.80.94At3g05610819727pectinesterase family proteinF:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:cell wall, plant-type cell wall;OBPFMVAO.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
50.699.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
40.499.8GSM143302Ts_genomic_hyb_1GSE6203Rus_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
39.099.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
37.499.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
36.999.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.699.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.199.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.799.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.699.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.699.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.099.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.999.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.699.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.299.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.199.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.499.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.399.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.499.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.899.7GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
27.999.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
27.399.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.999.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
26.499.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.899.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.199.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
22.799.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
22.099.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.899.5GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.399.4GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
11.199.2GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.299.2GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.799.1GSM142735DH001_ATH1_A2-BCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
9.699.1GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
9.399.1E-MEXP-509-raw-cel-829148561
9.199.1GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
8.699.0GSM106915opr3_JA_22 hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0833GO:0048268The process by which clathrin triskelia are assembled into the ordered structure known as a clathrin cage.Link to AmiGO
0.0503GO:0042545The series of events leading to chemical and structural alterations of an existing cell wall that can result in loosening, increased extensibility or disassembly.Link to AmiGO
0.0372GO:0009860Growth of pollen via tip extension of the intine wall.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.028200500Starch and sucrose metabolismLink to KEGG PATHWAY
0.015100520Amino sugar and nucleotide sugar metabolismLink to KEGG PATHWAY
0.014100360Phenylalanine 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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