Co-expression analysis

Gene ID At5g51640
Gene name YLS7
Module size 53 genes
NF 0.22
%ile 22.1

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
1.00100.01.00At5g51640835238YLS7Encodes leaf-senescence-related protein.O.I.H.G.S.X.
0.4253.90.90At2g17760816285aspartyl protease family proteinF:aspartic-type endopeptidase activity;P:proteolysis;C:anchored to membrane;PFMOO.I.H.G.S.X.
0.4050.80.90At5g64370836558BETA-UP (beta-ureidopropionase)PYD3 encodes a beta-ureidopropionase which, when expressed in E. coli, has been shown to convert beta-ureidopropionate into beta-alanine.O.I.H.G.S.X.
0.3948.40.88At2g13650815850GONST1 (Golgi Nucleotide Sugar Transporter 1)GDP-mannose transporterO.I.H.G.S.X.
0.3846.70.89At4g23850828484long-chain-fatty-acid--CoA ligase / long-chain acyl-CoA synthetaseF:catalytic activity;P:fatty acid biosynthetic process;C:plasma membrane;BOMFPAVO.I.H.G.S.X.
0.3745.00.89At2g20010816520-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.3745.00.88At1g21380838737VHS domain-containing protein / GAT domain-containing proteinF:protein transporter activity;P:intracellular protein transport, intra-Golgi vesicle-mediated transport;C:Golgi stack, intracellular;MFPOBO.I.H.G.S.X.
0.3643.60.89At1g14000837960VIK (VH1-INTERACTING KINASE)Encodes a protein with similarity to members of the C1 subgroup of MAP kinase kinase kinases. Interacts physically with the receptor kinase BRL2/VH1 and appears to be involved in auxin and brassinosteriod signaling.O.I.H.G.S.X.
0.3643.60.89At4g33430829480BAK1 (BRI1-ASSOCIATED RECEPTOR KINASE)Leu-rich receptor Serine/threonine protein kinase. Component of BR signaling that interacts with BRI1 in vitro and in vivo to form a heterodimer. Brassinolide-dependent association of BRI1 and BAK1 in vivo. Phosphorylation of both BRI1 and BAK1 on Thr residues was BR dependent. Although BAK1 and BRI1 alone localize in the plasma membrane, when BAK1 and BRI1 are coexpressed, the heterodimer BAK1/BRI1 they form is localized in the endosome.O.I.H.G.S.X.
0.3541.60.88At4g24400828542CIPK8 (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.
0.3541.60.88At1g28280839722VQ motif-containing proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PMFOBO.I.H.G.S.X.
0.3032.10.90At1g30000839879glycoside hydrolase family 47 proteinF:mannosyl-oligosaccharide 1,2-alpha-mannosidase activity, alpha-mannosidase activity, calcium ion binding;P:protein amino acid N-linked glycosylation;C:Golgi apparatus;MFOPBO.I.H.G.S.X.
0.2930.30.89At1g21370838736unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;FPOO.I.H.G.S.X.
0.2830.30.89At3g26090822207RGS1 (REGULATOR OF G-PROTEIN SIGNALING 1)Encodes ArRGS1, a putative membrane receptor for D-glucose. Also functions as a regulator of G-protein signaling. Has GTPase-accelerating activity. Regulates the activity of AtGPA1. Lines over-expressing the gene are more tolerant to dehydration and root elongation. These phenotypes are dependent on ABA.O.I.H.G.S.X.
0.2830.30.90At5g47200834766ATRAB1AF:GTP binding;P:protein transport, small GTPase mediated signal transduction;C:plasma membrane;MOFPBVAO.I.H.G.S.X.
0.2726.20.89At5g63880836508VPS20.1F:unknown;P:vesicle-mediated transport, N-terminal protein myristoylation;C:ESCRT III complex, plasma membrane;MOFPBAVO.I.H.G.S.X.
0.2726.20.88At2g26230817163uricase / urate oxidase / nodulin 35, putativeF:urate oxidase activity;P:purine base metabolic process;C:peroxisome;BFMPOAO.I.H.G.S.X.
0.2726.20.89At1g32790840173RNA-binding protein, putativeRNA-binding protein, putative, similar to RNA-binding protein GB:CAB40027 GI:4539439 from (Arabidopsis thaliana).Member of a family of PAB2 binding domain proteins.O.I.H.G.S.X.
0.2624.40.89At1g07630837276PLL5Encodes 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.
0.2624.40.89At2g21520816691transporterF:transporter activity;P:transport;C:intracellular;MPFOO.I.H.G.S.X.
0.2624.40.90At4g051608258644-coumarate--CoA ligase, putative / 4-coumaroyl-CoA synthase, putativeEncodes a peroxisomal protein involved in the activation of fatty acids through esterification with CoA. At4g05160 preferentially activates fatty acids with medium chain length (C6:0 and C7:0) as well as even-numbered long-chain fatty acids (C14:0, C16:0 and C18:0). At4g05160 was also able to catalyze the conversion of OPC-6:0 to its CoA ester and is therefore thought to be involved in the peroxisomal β-oxidation steps of jasmonic acid biosynthesis.O.I.H.G.S.X.
0.2624.40.89At5g44240834447haloacid dehalogenase-like hydrolase family proteinF:ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism;P:metabolic process, phospholipid transport, ATP biosynthetic process;C:integral to membrane, membrane;MBOFPAVO.I.H.G.S.X.
0.2420.70.88At2g37110818287unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFMOO.I.H.G.S.X.
0.2420.70.90At5g03290831884isocitrate dehydrogenase, putative / NAD+ isocitrate dehydrogenase, putativeF:isocitrate dehydrogenase (NAD+) activity, ATP binding;P:tricarboxylic acid cycle, metabolic process;C:mitochondrion, chloroplast;BOMFAPO.I.H.G.S.X.
0.2420.70.89At1g69960843333PP2A (SERINE/THREONINE PROTEIN PHOSPHATASE 2A)type 2A serine/threonine protein phosphatase (PP2A) mRNA,O.I.H.G.S.X.
0.2319.30.89At1g32130840105-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBVAO.I.H.G.S.X.
0.2319.30.89At1g25280839112AtTLP10 (TUBBY LIKE PROTEIN 10)Member of TLP familyO.I.H.G.S.X.
0.2217.50.89At1g04970839357lipid-binding serum glycoprotein family proteinF:lipid binding;P:biological_process unknown;C:plasma membrane, vacuole;MPOO.I.H.G.S.X.
0.2115.80.90At5g59420836061ORP3C (OSBP(OXYSTEROL BINDING PROTEIN)-RELATED PROTEIN 3C)F:oxysterol binding;P:steroid metabolic process;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.2014.40.90At3g59950825165autophagy 4b (APG4b)F:peptidase activity;P:autophagy;C:chloroplast;MOFPO.I.H.G.S.X.
0.1912.70.88At3g51580824321unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MBPOFVO.I.H.G.S.X.
0.1912.70.89At3g23540821933-F:unknown;P:unknown;C:cellular_component unknown;OBMFPAO.I.H.G.S.X.
0.1912.70.89At5g46630834706clathrin adaptor complexes medium subunit family proteinclathrin adaptor complexes medium subunit family protein, contains Pfam profile: PF00928 adaptor complexes medium subunit family; similar to micro-adaptins of clathrin coated vesicle adaptor complexesO.I.H.G.S.X.
0.1811.40.89At4g25360828639-F:unknown;P:biological_process unknown;C:unknown;PO.I.H.G.S.X.
0.1811.40.88At3g19950821533zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVBO.I.H.G.S.X.
0.1710.20.89At4g15940827276fumarylacetoacetate hydrolase family proteinF:catalytic activity;P:metabolic process;C:mitochondrion;BOFMAPO.I.H.G.S.X.
0.1710.20.89At3g52570824423ATP bindingF:ATP binding;P:unknown;C:mitochondrion;BOMFPAO.I.H.G.S.X.
0.1710.20.89At5g45900834630APG7 (AUTOPHAGY 7)Component of autophagy conjugation pathway. Required for proper senescence.O.I.H.G.S.X. (SENESCENCE ASSOCIATED GENE 18)Senescence associated gene (SAG). Expression induced by ozone. Encodes a plant-specific protein of unknown function. Based on a personal communication from David Meinke (08/21/2007), this gene is not allelic to TTN4, even though this has been stated previously in a publication.O.I.H.G.S.X.;P:unknown;C:unknown;BOMPFVO.I.H.G.S.X. and TRAF homology domain-containing protein / MATH domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVAO.I.H.G.S.X. family proteinF:binding;P:biological_process unknown;C:plasma membrane;MFPOO.I.H.G.S.X. (CELL DIVISION CYCLE 48)Encodes a cell division cycle protein, a member of AAA-type ATPases gene family. Expressed throughout the plant in regions of cell division. Within the cell, sub-cellular localization varies depending on the stage of the cell cycle.Mutants in which the expression of CDC48A is altered show defects in cytokinesis, cell expansion and cell differentiation.O.I.H.G.S.X. (ARGININE-TRNA PROTEIN TRANSFERASE 1)Encodes an arginyl-tRNA:protein transferase (ATE1), a component of the N-end rule pathway that targets protein degradation through the identity of the amino-terminal residue of specific protein substrates. Arabidopsis contains two ATE genes: At5g05700/ATE1, At3g11240/ATE2. Another component of the N-end rule pathway is At5g02310/PROTEOLYSIS6 (PRT6). PRT6 and ATE were shown to regulate seed after-ripening, seedling sugar sensitivity, seedling lipid breakdown, and abscisic acid (ABA) sensitivity of germination. Mutants of ATE1 also display delayed leaf senescence.O.I.H.G.S.X. (RADICAL-INDUCED CELL DEATH1)Encodes a protein belonging to the (ADP-ribosyl)transferase domain-containing subfamily of WWE protein-protein interaction domain protein family. Superoxide radicals are necessary and sufficient to propagate cell death or lesion formation in rcd1 mutants. Without stress treatment, RCD1 is localized in the nucleus. Under high salt or oxidative stress, RCD1 is found not only in the nucleus but also in the cytoplasm.O.I.H.G.S.X. (MIRO-RELATED GTP-ASE 2)Encodes a calcium binding GTPases that is localized to the mitochondrion and is involved in salt stress response.O.I.H.G.S.X. of eIF4B - eukaryotic initiation factor 4BO.I.H.G.S.X. beta-D-mannosyltransferase, putative / dolichol-phosphate mannosyltransferase, putative / mannose-P-dolichol synthase, putativeF:elongation factor-2 kinase activity, dolichyl-phosphate beta-D-mannosyltransferase activity;P:protein amino acid glycosylation;C:endoplasmic reticulum;BOAMFPVO.I.H.G.S.X.;P:unknown;C:unknown;FMOPO.I.H.G.S.X. (PLANT VAP HOMOLOG 12)Encodes a Plant VAMP-Associated protein that localizes to the ER and binds to the sitosterol-binding protein ORP3a. The WFDE motif in ORP3a appears to be important for this direct interaction. Mutation of this motif causes ORP3a to relocalize to the Golgi and cytosol. The interaction between PVA12 and ORP3a does not appear to be sterol-dependent.O.I.H.G.S.X. (ARABIDOPSIS DYNAMIN-LIKE 3)A high molecular weight GTPase whose GTP-binding domain shows a low homology to those of other plant dynamin-like proteins.Contains a pleckstrin homologous domain.O.I.H.G.S.X. synthetase class I (C) family proteinF:cysteine-tRNA ligase activity, nucleotide binding, ATP binding;P:response to cadmium ion, cysteinyl-tRNA aminoacylation;C:cytoplasm;OBMFAPVO.I.H.G.S.X. protein-relatedF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;BOMFPO.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
85.999.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
62.199.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
52.499.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
50.799.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
50.499.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.999.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
48.099.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.899.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
46.799.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
45.899.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
45.399.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.899.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.299.8GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
42.799.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.799.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.299.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.199.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.499.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.699.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
38.499.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.299.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.499.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.599.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.299.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.399.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.599.7GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
22.199.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
19.899.6GSM133776Lindsey_1-1_globular-apical_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
19.599.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
17.599.5GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
17.399.5GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
16.499.5GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
16.299.5GSM133773Lindsey_1-25_torpedo-meristem_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.799.1GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.099.1GSM131636ATGE_73_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
8.699.0GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0783GO:0010150The process that occurs in a leaf near the end of its active life that is associated with the dismantling of cell components and membranes, loss of functional chloroplasts, and an overall decline in metabolism.Link to AmiGO
0.0662GO:0010149A preprogrammed process associated with the dismantling of an anatomical structure and an overall decline in metabolism. This may include the breakdown of organelles, membranes and other cellular components. An example of this process is found in Arabidopsis thaliana, when older leaves or floral organs are shed.Link to AmiGO
0.0552GO:0009749A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a glucose stimulus.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.048200510N-Glycan biosynthesisLink to KEGG PATHWAY
0.036100232Caffeine metabolismLink to KEGG PATHWAY
0.034204144EndocytosisLink to KEGG PATHWAY

Inter-species module comparison

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

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