Co-expression analysis

Gene ID At4g36700
Gene name cupin family protein
Module size 42 genes
NF 0.68
%ile 87.5



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
0.8994.61.00At4g36700829823cupin family proteinF:nutrient reservoir activity;P:biological_process unknown;C:endomembrane system;MOFBPVAO.I.H.G.S.X.
0.9095.10.87At5g07190830610ATS3 (ARABIDOPSIS THALIANA SEED GENE 3)Gene is expressed preferentially in the embryo and encodes a unique protein of unknown function.O.I.H.G.S.X.
0.8693.10.86At1g03890839379cupin family proteinF:nutrient reservoir activity;P:biological_process unknown;C:endomembrane system;PBMOO.I.H.G.S.X.
0.8592.40.80At1g62290842526aspartyl protease family proteinF:aspartic-type endopeptidase activity;P:proteolysis, lipid metabolic process;C:vacuole;MFOPBO.I.H.G.S.X.
0.8491.90.83At4g271508288232S seed storage protein 2 / 2S albumin storage protein / NWMU2-2S albumin 2F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;POO.I.H.G.S.X.
0.8391.40.79At4g271708288252S seed storage protein 4 / 2S albumin storage protein / NWMU2-2S albumin 4F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;POO.I.H.G.S.X.
0.8391.40.79At3g62730825448unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PBO.I.H.G.S.X.
0.8391.40.81At4g271408288222S seed storage protein 1 / 2S albumin storage protein / NWMU1-2S albumin 1F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PMOO.I.H.G.S.X.
0.8290.90.91At3g63040825479unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.8290.90.74At3g60730825244pectinesterase family proteinF:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:endomembrane system, cell wall, plant-type cell wall;PBFMO.I.H.G.S.X.
0.8089.80.77At5g64190836540unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7989.10.81At1g03880839383CRU2 (CRUCIFERIN 2)Protein is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds.O.I.H.G.S.X.
0.7989.10.85At4g26740828781ATS1 (ARABIDOPSIS THALIANA SEED GENE 1)Gene is expressed preferentially in the embryo, has similarity to a rice ABA-responsive gene, EFA27.O.I.H.G.S.X.
0.7687.40.85At5g62800836401seven in absentia (SINA) family proteinF:ubiquitin-protein ligase activity, protein binding, zinc ion binding;P:multicellular organismal development, protein ubiquitination, ubiquitin-dependent protein catabolic process;C:nucleus;MPOFO.I.H.G.S.X.
0.7687.40.77At4g27160828824AT2S3F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;POO.I.H.G.S.X.
0.7586.90.85At4g25140828617OLEO1 (OLEOSIN 1)Encodes oleosin1, a protein found in oil bodies, involved in seed lipid accumulation. Suppression of OLEO1 (and OLEO2) resulted in an aberrant phenotype of embryo cells that contain unusually large oilbodies that are not normally observed in seeds. Changes in the size of oilbodies caused disruption of storage organelles, altering accumulation of lipids and proteins and causing delay in germination. Functions in freezing tolerance of seeds.O.I.H.G.S.X.
0.7385.50.88At1g54860841925unknown proteinF:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;PO.I.H.G.S.X.
0.7385.50.84At1g68380843167unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.7284.80.86At3g27660822388OLEO4 (OLEOSIN 4)Encodes oleosin4 (Plant Cell, 2006, 18:1961), a protein found in oil bodies, involved in seed lipid accumulation. Functions in freezing tolerance of seeds. Note: also referred to as OLE3 in Plant Journal 2008, 55:798.O.I.H.G.S.X.
0.7284.80.86At5g09640830823SCPL19encodes a serine carboxypeptidase-like (SCPL) protein. Mutants accumulate sinapoylglucose instead of sinapoylcholine, and have increased levels of choline and decreased activity of the enzyme sinapoylglucose:choline sinapoyltransferase.O.I.H.G.S.X.
0.7184.20.79At2g41070818706EEL (ENHANCED EM LEVEL)Transcription factor homologous to ABI5. Regulates AtEm1 expression by binding directly at the AtEm1 promoter. Located in the nucleus and expressed during seed maturation in the cotyledons and later in the whole embryo.O.I.H.G.S.X.
0.6982.90.80At5g59170836035proline-rich family proteinF:unknown;P:unknown;C:endomembrane system;MPOBFVAO.I.H.G.S.X.
0.6982.90.75At5g44120834435CRA1 (CRUCIFERINA)Encodes a 12S seed storage protein. The Landsberg erecta genome contains another copy of 12S globulin gene, CRA2, which is located tandemly with CRA1. Protein is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds.O.I.H.G.S.X.
0.6882.20.80At5g40420834040OLEO2 (OLEOSIN 2)Encodes oleosin2, a protein found in oil bodies, involved in seed lipid accumulation. Suppression of OLEO1 (and OLEO2) resulted in an aberrant phenotype of embryo cells that contain unusually large oilbodies that are not normally observed in seeds. Changes in the size of oilbodies caused disruption of storage organelles, altering accumulation of lipids and proteins and causing delay in germination. Functions in freezing tolerance of seeds.O.I.H.G.S.X.
0.6781.60.85At1g17810838359BETA-TIP (BETA-TONOPLAST INTRINSIC PROTEIN)beta-tonoplast intrinsic protein (beta-TIP) mRNA, completeO.I.H.G.S.X.
0.6781.60.83At2g28490817397cupin family proteinF:nutrient reservoir activity;P:biological_process unknown;C:endomembrane system;BMPOFVAO.I.H.G.S.X.
0.6680.10.74At4g28520828970CRU3 (CRUCIFERIN 3)Encodes a 12S seed storage protein that is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds.O.I.H.G.S.X.
0.6579.60.75At1g19900838578glyoxal oxidase-relatedF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;BFPOO.I.H.G.S.X.
0.6378.10.82At1g11170837658unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POBO.I.H.G.S.X.
0.6378.10.85At1g65090842817unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBVO.I.H.G.S.X.
0.6277.30.80At5g50600835129AtHSD1 (hydroxysteroid dehydrogenase 1)F:oxidoreductase activity, binding, catalytic activity;P:response to brassinosteroid stimulus, response to abscisic acid stimulus;C:endomembrane system;BOMFPAVO.I.H.G.S.X.
0.6176.70.80At3g22640821835PAP85F:nutrient reservoir activity;P:biological_process unknown;C:plant-type cell wall;POMO.I.H.G.S.X.
0.5974.70.78At1g67100843030LBD40 (LOB DOMAIN-CONTAINING PROTEIN 40)F:unknown;P:response to gibberellin stimulus;C:unknown;PO.I.H.G.S.X.
0.5773.80.81At3g18570821388glycine-rich protein / oleosinF:molecular_function unknown;P:lipid storage;C:monolayer-surrounded lipid storage body, integral to membrane, membrane;PO.I.H.G.S.X.
0.5673.00.75At1g48130841231ATPER1encodes a protein similar to the 1-cysteine (1-Cys) peroxiredoxin family of antioxidants. Expression is limited to seed (aleurone and embryo) and is not induced by ABA or drought.O.I.H.G.S.X.
0.5673.00.75At5g45830834623DOG1 (DELAY OF GERMINATION 1)Encodes DOG1 (DELAY OF GERMINATION 1). A quantitative trait locus involved in the control of seed dormancy. Belongs to a novel plant-specific gene family whose members include: DOG1-like 1-4 (DOGL1-4, At4g18660, At4g18680, At4g18690, At4g18650 respectively) and DOG1. DOG1 expression is seed-specific.O.I.H.G.S.X.
0.5570.60.77At1g73190843653TIP3Moves to the Protein Storage Vacuole in a Golgi independent mannerO.I.H.G.S.X.
0.5570.60.77At1g05510837053-Protein is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds.O.I.H.G.S.X.
0.5469.50.79At4g31830829312unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4862.50.78At1g29680839845unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPFO.I.H.G.S.X.
0.4862.50.77At5g55240835617caleosin-related family protein / embryo-specific protein, putativeF:calcium ion binding;P:biological_process unknown;C:cellular_component unknown;PFOO.I.H.G.S.X.
0.4558.30.75At4g10020826593AtHSD5 (hydroxysteroid dehydrogenase 5)F:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:endomembrane system;BOMFPAVO.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
56.999.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.799.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.199.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.399.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.899.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.099.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.799.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.699.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.099.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.999.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.899.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.699.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.499.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.299.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.099.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.899.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.899.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.899.7GSM142734DH001_ATH1_A1-UNM1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
33.399.7GSM142735DH001_ATH1_A2-BCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
33.399.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.399.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
18.299.5GSM142738DH001_ATH1_A5-BCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
17.899.5GSM142737DH001_ATH1_A4-UNM2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
17.199.5GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.099.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.499.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.999.4GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
14.099.4GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
11.499.3GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
11.299.2GSM131700ATGE_82_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.999.2GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.899.2GSM131702ATGE_82_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.799.2GSM131607ATGE_42_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.599.2GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.599.2GSM10454WT Post-Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
10.399.2GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.399.2GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.399.2GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.199.2GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.099.2GSM284385Arabidopsis GEP6GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
9.799.1GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.499.1GSM311280Laser 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
9.399.1GSM131606ATGE_42_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.399.1GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
9.299.1E-ATMX-35-raw-cel-1574334848
9.199.1GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
8.999.0GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
8.799.0GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1334GO:0019915The accumulation and maintenance in cells or tissues of lipids, compounds soluble in organic solvents but insoluble or sparingly soluble in aqueous solvents. Lipid reserves can be accumulated during early developmental stages for mobilization and utilization at later stages of development.Link to AmiGO
0.1303GO:0010344The cellular process by which an seed oilbody is synthesized, aggregates, and bonds together. Seed oilbodies are simple organelles comprising a matrix of triglyceride surrounded by a phospholipid monolayer embedded and covered with unique proteins called oleosins. Seed oilbodies supply the energy requirements for the growth of the seedling after germination.Link to AmiGO
0.1133GO:0050826A 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 freezing stimulus, temperatures below 0 degrees Celsius.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.014100940Phenylpropanoid biosynthesisLink 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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