Co-expression analysis

Gene ID At5g06320
Gene name NHL3
Module size 14 genes
NF 0.57
%ile 78.5



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
0.5065.31.00At5g06320830520NHL3encodes a protein whose sequence is similar to tobacco hairpin-induced gene (HIN1) and Arabidopsis non-race specific disease resistance gene (NDR1). Expression of this gene is induced by cucumber mosaic virus, spermine and Pseudomonas syringae pv. tomato DC3000. The gene product is localized to the plasma membrane.O.I.H.G.S.X.
0.8693.10.86At4g34150829563C2 domain-containing proteinF:unknown;P:response to cold;C:unknown;MPFOBVAO.I.H.G.S.X.
0.7385.50.84At3g09830820141protein kinase, putativeF:protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;MPOBFVAO.I.H.G.S.X.
0.6982.90.86At3g52400824405SYP122 (SYNTAXIN OF PLANTS 122)syntaxin protein, involved in the negative regulation of defense pathways such as programmed cell death, salicylic acid signalling pathway, jasmonic acid signalling pathwayO.I.H.G.S.X.
0.6478.90.85At2g05940815147protein kinase, putativeF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MPOBFVAO.I.H.G.S.X.
0.6478.90.82At4g39640830118GGT1 (GAMMA-GLUTAMYL TRANSPEPTIDASE 1)The gene encodes a gamma-glutamyltransferase (AKA gamma-glutamyl transpeptidase, EC 2.3.2.2) that is located in vascular tissues (predominantly phloem) of leaves and is involved in the degradation of glutathione. The encoded enzyme also mitigates oxidative stress by metabolizing GSSG (oxidized form of GSH - glutathione) in the apoplast.O.I.H.G.S.X.
0.6378.10.86At4g12720826884NUDT7Encodes a protein with ADP-ribose hydrolase activity. Negatively regulates EDS1-conditioned plant defense and programmed cell death.O.I.H.G.S.X.
0.6176.70.81At4g34390829589XLG2 (extra-large GTP-binding protein 2)F:guanyl nucleotide binding, signal transducer activity;P:in 7 processes;C:nucleus;MFPOBO.I.H.G.S.X.
0.5267.40.83At1g29690839846CAD1 (constitutively activated cell death 1)Encodes a protein containing a domain with significant homology to the MACPF (membrane attack complex and perforin) domain of complements and perforin proteins that are involved in innate immunity in animals. Transgenic cad1-1 mutant plants show lesions seen in the hypersensitive response, as well as a spontaneous activation of expression of pathogenesis-related genes and leading to a 32-fold increase in salicylic acid (SA). CAD1 is postulated to act as a negative regulator controlling SA-mediated pathway of programmed cell death in plant immunity.O.I.H.G.S.X.
0.5065.30.82At1g55450841992embryo-abundant protein-relatedF:methyltransferase activity;P:response to salt stress;C:unknown;BPFMOAO.I.H.G.S.X.
0.4963.50.84At1g07000837210ATEXO70B2 (exocyst subunit EXO70 family protein B2)A member of EXO70 gene family, putative exocyst subunits, conserved in land plants. Arabidopsis thaliana contains 23 putative EXO70 genes, which can be classified into eight clusters on the phylogenetic tree.O.I.H.G.S.X.
0.4761.20.84At1g28380839735NSL1 (necrotic spotted lesions 1)This gene is predicted to encode a protein involved in negatively regulating salicylic acid-related defense responses and cell death programs. nsl1 mutants develop necrotic lesions spontaneously and show other features of a defense response, such as higher levels of SA and disease resistance-related transcripts, in the absence of a biotic stimulus. The NSL1 protein is predicted to have a MACPF domain, found in proteins that form a transmembrane pore in mammalian immune responses. NSL1 transcript levels do not appear to change in response to biotic stresses, but are elevated by cycloheximide in seedlings, and by sodium chloride in roots.O.I.H.G.S.X.
0.4761.20.90At5g13190831158-F:unknown;P:biological_process unknown;C:cellular_component unknown;PMO.I.H.G.S.X.
0.3948.40.85At2g41100818709TCH3 (TOUCH 3)encodes a calmodulin-like protein, with six potential calcium binding domains. Calcium binding shown by Ca(2+)-specific shift in electrophoretic mobility. Expression induced by touch and darkness. Expression may also be developmentally controlled. Expression in growing regions of roots, vascular tissue, root/shoot junctions, trichomes, branch points of the shoot, and regions of siliques and flowers.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
94.799.9GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
82.499.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
81.299.9GSM133757Lindsey_1-8_heart-stage-cotyledon_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
66.099.8GSM311280Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
63.199.8GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
58.899.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
53.799.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
45.399.8GSM244454Arabidopsis AtMYB30-ox_2-4 h_ Xanthomonas inoculated_biological rep2_exp2GSE9674Expression data from Arabidopsis plants misexpressing AtMYB30 after Xanthomonas inoculation at early timepointsLink to GEO
44.899.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
42.699.8GSM284393Arabidopsis GCE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
42.399.8GSM311279Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
41.299.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
40.999.8GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
39.399.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.999.7GSM244452Arabidopsis AtMYB30-ox_90-105 min_ Xanthomonas inoculated_biological rep2_exp2GSE9674Expression data from Arabidopsis plants misexpressing AtMYB30 after Xanthomonas inoculation at early timepointsLink to GEO
32.699.7GSM244455Arabidopsis AtMYB30-ox_6 h_ Xanthomonas inoculated_biological rep1_exp1GSE9674Expression data from Arabidopsis plants misexpressing AtMYB30 after Xanthomonas inoculation at early timepointsLink to GEO
28.399.7GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
24.699.6GSM244450Arabidopsis AtMYB30-ox_T0 (not inoculated)_biological rep2_exp2GSE9674Expression data from Arabidopsis plants misexpressing AtMYB30 after Xanthomonas inoculation at early timepointsLink to GEO
17.999.5GSM244451Arabidopsis AtMYB30-ox_90-105 min_ Xanthomonas inoculated_biological rep1_exp1GSE9674Expression data from Arabidopsis plants misexpressing AtMYB30 after Xanthomonas inoculation at early timepointsLink to GEO
17.199.5GSM10454WT Post-Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
14.899.4GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
14.599.4GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.899.4GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
13.899.4GSM10456WT Post-Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
13.599.4GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
13.199.4GSM244453Arabidopsis AtMYB30-ox_2-4 h_ Xanthomonas inoculated_biological rep1_exp1GSE9674Expression data from Arabidopsis plants misexpressing AtMYB30 after Xanthomonas inoculation at early timepointsLink to GEO
13.199.4GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
13.199.4GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.899.3GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
12.499.3GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.399.3GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.199.3GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
12.199.3GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.199.3GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.399.3GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.099.2GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.999.2GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.899.2GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.699.2GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
10.399.2GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.299.2GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.199.1GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
8.899.0GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
8.799.0GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1331GO:0070212The transfer of multiple ADP-ribose residues from NAD to a protein amino acid, forming a poly(ADP-ribose) chain.Link to AmiGO
0.1251GO:0051245Any process that stops, prevents, or reduces the rate of the cellular defense response.Link to AmiGO
0.1181GO:0010363Any endogenous process that modulates the frequency, rate or extent of the plant hypersensitive response.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.111100430Taurine and hypotaurine metabolismLink to KEGG PATHWAY
0.087100590Arachidonic acid metabolismLink to KEGG PATHWAY
0.054100460Cyanoamino acid 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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