Co-expression analysis

Gene ID At1g75800
Gene name pathogenesis-related thaumatin family protein
Module size 51 genes
NF 0.26
%ile 29.9



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
1.00100.01.00At1g75800843913pathogenesis-related thaumatin family proteinF:molecular_function unknown;P:response to other organism;C:endomembrane system;PMFBOVAO.I.H.G.S.X.
0.4659.80.90At1g01820839257PEX11C (PEROXIN 11C)member of the peroxin11 (PEX11) gene family, integral to peroxisome membrane, controls peroxisome proliferation.O.I.H.G.S.X.
0.4457.20.88At2g01570814686RGA1 (REPRESSOR OF GA1-3 1)Member of the VHIID/DELLA regulatory family. Contains homopolymeric serine and threonine residues, a putative nuclear localization signal, leucine heptad repeats, and an LXXLL motif. Putative transcriptional regulator repressing the gibberellin response and integration of phytohormone signalling. DELLAs repress cell proliferation and expansion that drives plant growth. The protein undergoes degradation in response to GA via the 26S proteasome. RGA1 binds to PIF3 and inhibits its DNA binding activity and thus affects the expression of PIF3 regulated genes. RGA may be involved in reducing ROS accumulation in response to stress by up-regulating the transcription of superoxide dismutases. Represses GA-induced vegetative growth and floral initiation. Rapidly degraded in response to GA. Involved in fruit and flower development.O.I.H.G.S.X.
0.4355.30.87At4g00335828093RHB1AF:protein binding, zinc ion binding;P:N-terminal protein myristoylation;C:unknown;PMOFVO.I.H.G.S.X.
0.4152.40.90At4g05150825863octicosapeptide/Phox/Bem1p (PB1) domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFOBO.I.H.G.S.X.
0.3948.40.89At2g37480818325unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOFBO.I.H.G.S.X.
0.3948.40.89At5g08520830751myb family transcription factorF:transcription factor activity, DNA binding;P:regulation of transcription;C:unknown;POMFBO.I.H.G.S.X.
0.3948.40.87At5g56140835713KH domain-containing proteinF:RNA binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MPBOFVAO.I.H.G.S.X.
0.3846.70.88At2g45980819206unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3846.70.89At3g14100820626oligouridylate-binding protein, putativeF:mRNA 3'-UTR binding;P:unknown;C:unknown;MPFOBO.I.H.G.S.X.
0.3846.70.87At1g56280842081ATDI19Encodes a gene whose transcript level in root and leaves increases to progressive drought stress. The increase in transcript level is independent from abscisic acid level. Sequence is not similar to any protein of known function. It appears to be a member of plant-specific gene family. It's phosphorylated by AtCPK11 in a Ca(2+)-dependent manner at Thr105 and Ser107 within the AtDi19 bipartite nuclear localization signalO.I.H.G.S.X.
0.3643.60.89At2g21240816663BPC4 (BASIC PENTACYSTEINE 4)F:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PMBO.I.H.G.S.X.
0.3541.60.88At4g02440828008EID1 (EMPFINDLICHER IM DUNKELROTEN LICHT 1)EID1 is an F-box protein that functions as a negative regulator in phytochrome A (phyA)-specific light signalling. Expressed at all stages of plant development independently of light conditions, localizes to the nucleus, and forms nuclear speckles under continuous far-red light. Forms stable dimeric and trimeric complexes with several ASK proteins and Cullin1 in yeast and in planta.O.I.H.G.S.X.
0.3439.80.89At5g65960836726unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOFO.I.H.G.S.X.
0.3439.80.90At5g10860830953CBS domain-containing proteinF:unknown;P:response to salt stress;C:mitochondrion;BOAPFMO.I.H.G.S.X.
0.3338.10.89At1g08110837330lactoylglutathione lyase, putative / glyoxalase I, putativeF:calmodulin binding, lactoylglutathione lyase activity;P:response to cadmium ion, carbohydrate metabolic process;C:chloroplast;BOFPMAO.I.H.G.S.X.
0.3338.10.87At3g06170819791TMS membrane family protein / tumour differentially expressed (TDE) family proteinF:unknown;P:unknown;C:endomembrane system, membrane;MFPOBO.I.H.G.S.X.
0.3235.70.89At1g30200839900F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3032.10.88At1g05805837090basic helix-loop-helix (bHLH) family proteinF:transcription factor activity, DNA binding;P:regulation of transcription;C:cytosol;PMOFBAO.I.H.G.S.X.
0.3032.10.88At3g61180825290zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:plasma membrane;PMOFVBO.I.H.G.S.X.
0.3032.10.87At3g51370824300protein phosphatase 2C, putative / PP2C, putativeF:protein serine/threonine phosphatase activity, catalytic activity;P:protein amino acid dephosphorylation;C:plasma membrane;PMOFBVO.I.H.G.S.X.
0.3032.10.88At3g09880820146ATB' BETAEncodes B' regulatory subunit of PP2A (AtB'beta).O.I.H.G.S.X.
0.3032.10.87At1g04400839529CRY2 (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.
0.2930.30.88At5g54540835542-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBMO.I.H.G.S.X.
0.2930.30.87At1g49850841408zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVBO.I.H.G.S.X.
0.2830.30.87At5g59950836117RNA and export factor-binding protein, putativeF:nucleotide binding, nucleic acid binding;P:biological_process unknown;C:chloroplast;MPFOBVAO.I.H.G.S.X.
0.2830.30.88At5g10450830909GRF6 (G-box regulating factor 6)Encodes a member of the 14-3-3 gene family that is a lambda isoform (14-3-3λ). Interacts with APX3 (ascorbate peroxidase) and AKR2 , suggesting a role in mediating oxidative metabolism in stress response. This protein was shown to colocalize and interact with SERK1 by which it is phosphorylated. This protein is also reported to interact with the phosphorylated form of the BZR1 transcription factor involved in brassinosteroid signaling and may affect the nucleocytoplasmic shuttling of BZR1.O.I.H.G.S.X.
0.2830.30.87At4g27000828808ATRBP45CF:RNA binding;P:unknown;C:unknown;MPFOBAVO.I.H.G.S.X.
0.2726.20.87At1g78890844226unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PO.I.H.G.S.X.
0.2624.40.88At4g22750828372zinc finger (DHHC type) family proteinF:zinc ion binding;P:unknown;C:endomembrane system;MOFPO.I.H.G.S.X.
0.2522.60.87At3g55830824749EPC1 (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.
0.2420.70.87At5g10960830963CCR4-NOT transcription complex protein, putativeF:ribonuclease activity, nucleic acid binding;P:RNA modification;C:nucleus;PMOFO.I.H.G.S.X.
0.2420.70.87At5g22360832297ATVAMP714 (VESICLE-ASSOCIATED MEMBRANE PROTEIN 714)Member of Synaptobrevin-like AtVAMP7C, v-SNARE protein family.O.I.H.G.S.X.
0.2319.30.87At2g25310817069carbohydrate bindingF:carbohydrate binding;P:biological_process unknown;C:endomembrane system;MFPOBO.I.H.G.S.X.
0.2319.30.87At2g43430818944GLX2-1 (GLYOXALASE 2-1)glyoxalase II mitochondrial isozyme (Glx2-1) mRNA, nuclearO.I.H.G.S.X.
0.2217.50.87At3g56190824785ALPHA-SNAP2 (ALPHA-SOLUBLE NSF ATTACHMENT PROTEIN 2)Encodes one of two alpha-SNAPs (soluble NSF attachment protein) in ArabidopsisO.I.H.G.S.X.
0.2217.50.88At4g02080827368ATSAR2 (ARABIDOPSIS THALIANA SECRETION-ASSOCIATED RAS SUPER FAMILY 2)A member of ARF-like GTPase family. A thaliana has 21 members, in two subfamilies, ARF and ARF-like (ARL) GTPases.O.I.H.G.S.X.
0.2217.50.87At3g55460824712SCL30encodes an SC35-like splicing factor that is localized to nuclear specks.O.I.H.G.S.X.
0.2217.50.87At2g37410818317ATTIM17-2Mitochondrial inner membrane translocase. Together with AtTIM17-1, TIM17-2 has a long C-terminal extension not present in other TIMs. The extension is located in the outer membrane and so TIM17-2 links the inner and outer mitochondrial membranes. The C-terminal region is essential for protein import into mitochondria via the general import pathway but is not necessary for import via the carrier pathway.O.I.H.G.S.X.
0.2217.50.87At3g01340821216protein transport protein SEC13 family protein / WD-40 repeat family proteinF:nucleotide binding;P:intracellular protein transport, membrane budding;C:cellular_component unknown;MFBOPAO.I.H.G.S.X.
0.2115.80.88At5g49980835062AFB5 (Auxin F-Box protein 5)F:ubiquitin-protein ligase activity;P:unknown;C:unknown;PMOFO.I.H.G.S.X.
0.1912.70.87At5g01020831918protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation, N-terminal protein myristoylation;C:plasma membrane;MPOBFVAO.I.H.G.S.X.
0.1811.40.87At3g48750824036CDC2 (CELL DIVISION CONTROL 2)A-type cyclin-dependent kinase. Together with its specific inhibitor, the Kip-related protein, KRP2 they regulate the mitosis-to-endocycle transition during leaf development. Dominant negative mutations abolish cell division. Loss of function phenotype has reduced fertility with failure to transmit via pollen. Pollen development is arrested at the second mitotic division. Expression is regulated by environmental and chemical signals. Part of the promoter is responsible for expression in trichomes. Functions as a positive regulator of cell proliferation during development of the male gametophyte, embryo and endosperm. Phosphorylation of threonine 161 is required for activation of its associated kinase.O.I.H.G.S.X.
0.1710.20.88At3g10850820255GLY2glyoxalase II cytoplasmic isozyme (Glx2-2) mRNA, completeO.I.H.G.S.X.
0.168.80.87At5g13570831201DCP2 (DECAPPING 2)Encodes DCP2 with mRNA decapping activity. DCP2 forms a mRNA decapping complex with DCP1 (At1g08370) and VCS (VARICOSE) (At3g13300). Recombinant DCP2 is enzymatically active in vitro, generating from capped mRNAs m7GDP, and 5-phosphorylated mRNAs. DCP1, DCP2 and VCS colocalize in cytoplasmic loci, which are putative Arabidopsis mRNA processing bodies. Null mutants of DCP1, DCP2, and VCS accumulate capped mRNAs with a reduced degradation rate. These mutants also share a similar lethal phenotype at the seedling cotyledon stage, with disorganized veins, swollen root hairs, and altered epidermal cell morphology. The protein was shown by immunoprecipitation not to interact with DCP1.O.I.H.G.S.X.
0.157.80.87At3g06960819881PDE320 (PIGMENT DEFECTIVE 320)F:molecular_function unknown;P:acylglycerol transport;C:endoplasmic reticulum, chloroplast;PO.I.H.G.S.X.
0.146.80.87At4g25970828703PSD3 (phosphatidylserine decarboxylase 3)Encodes the major form of the two non-mitochondrail phosphatidylserine decarboxylase. Located at the ER.O.I.H.G.S.X.
0.135.80.87At3g19420821476ATPEN2 (ARABIDOPSIS THALIANA PTEN 2)F:phosphatase activity, protein tyrosine phosphatase activity;P:dephosphorylation;C:unknown;OMFBPVO.I.H.G.S.X.
0.135.80.87At1g08970837417NF-YC9 (NUCLEAR FACTOR Y, SUBUNIT C9)heme activated protein (HAP5c)O.I.H.G.S.X.
0.124.90.87At1g04140839272transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:chloroplast;MBFOPAO.I.H.G.S.X.
0.114.10.87At4g33670829509L-galactose dehydrogenase (L-GalDH)Encodes a L-galactose dehydrogenase, involved in ascorbate biosynthesisO.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
44.999.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.599.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
31.499.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.899.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.599.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.399.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.399.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.299.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
27.299.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.299.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.799.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.499.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
26.199.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.999.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.399.6GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.399.6GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.199.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
23.799.6GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
23.699.6GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
22.899.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.199.6GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.799.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
21.799.6GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.399.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.799.6GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
17.599.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
12.399.3GSM133721Deeken_A-1-Deeke-Tum_SLD_REP2GSE5725Agrobacterium tumefaciens-induced tumour development of Arabidopsis thalianaLink to GEO
10.499.2E-MEXP-1592-raw-cel-1617526984
10.099.2GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.999.1GSM133957Fukuda_1-2_0B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
9.599.1E-MEXP-1474-raw-cel-1593932801
9.499.1GSM142636MC002_ATH1_A5.2-dubos-5kxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
8.799.0GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0712GO:0019243The chemical reactions and pathways resulting in the breakdown of methylglyoxal, CH3-CO-CHO, into D-lactate via the intermediate S-lactoyl-glutathione. Glutathione is used in the first step of the pathway and then regenerated in the second step.Link to AmiGO
0.0381GO:0034196The directed movement of an acylglycerol into, out of, within or between cells. An acylglycerol is any mono-, di- or triester of glycerol with (one or more) fatty acids.Link to AmiGO
0.0381GO:0006900The evagination of a membrane, resulting in formation of a vesicle.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.040203018RNA degradationLink to KEGG PATHWAY
0.025104712Circadian rhythm - plantLink to KEGG PATHWAY
0.024100053Ascorbate and aldarate 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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