Co-expression analysis

Gene ID At1g77480
Gene name nucellin protein, putative
Module size 47 genes
NF 0.26
%ile 29.7

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
1.00100.01.00At1g77480844084nucellin protein, putativeF:aspartic-type endopeptidase activity;P:proteolysis;C:unknown;POFMO.I.H.G.S.X.
0.5368.60.90At5g08470830746PEX1 (peroxisome 1)an AAA-ATPase that is the probable Arabidopsis orthologue of one of the AAA-ATPases involved in peroxisome biogenesis in yeasts and mammals.O.I.H.G.S.X.
0.4659.80.90At5g56900835792CwfJ-like family protein / zinc finger (CCCH-type) family proteinF:zinc ion binding, catalytic activity, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.4659.80.91At3g11540820327SPY (SPINDLY)Encodes a N-acetyl glucosamine transferase that may glycosylate other molecules involved in GA signaling. Contains a tetratricopeptide repeat region, and a novel carboxy-terminal region. SPY acts as both a repressor of GA responses and as a positive regulation of cytokinin signalling. SPY may be involved in reducing ROS accumulation in response to stress.O.I.H.G.S.X.
0.4152.40.89At5g08550830755ILP1 (increased level of polyploidy1-1D)Encodes a transcriptional repressor that is homologous to the C-terminal region of mammalian GC binding factor. It regulates endoreduplication through control of CYC2A expression.O.I.H.G.S.X.
0.3846.70.89At5g06950830586AHBP-1BTranscription factor of the B-ZIP family that has high affinity for C-box motifs. Interacts with NPR1 and may regulate PR gene expression. Phosphorylated by a CK2-like protein in vitro. Phosphorylation is enhanced by salicylic acid treatment.O.I.H.G.S.X.
0.3745.00.90At5g51340835208unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOBO.I.H.G.S.X.
0.3643.60.89At3g62130825386epimerase-relatedF:pyridoxal phosphate binding, catalytic activity;P:metabolic process;C:cellular_component unknown;BOFPAMO.I.H.G.S.X.
0.3541.60.91At4g11110826712SPA2 (SPA1-RELATED 2)Encodes a member of the SPA (suppressor of phyA-105) protein family (SPA1-SPA4). SPA proteins contain an N-terminal serine/threonine kinase-like motif followed by a coiled-coil structure and a C-terminal WD-repeat domain. SPA proteins function redundantly in suppressing photomorphogenesis in dark- and light-grown seedlings. SPA2 primarily regulates seedling development in darkness and has little function in light-grown seedlings or adult plants.O.I.H.G.S.X.
0.3439.80.90At1g04950839370TAF6 (TBP-ASSOCIATED FACTOR 6)Encodes one of two Arabidopsis proteins with significant similarity to the histone fold TBP-associated factor TAF6. Mutants are embryo lethal and transmission of the mutant allele through the male gametophyte is significantly reduced. This is due to reduced pollen tube growth of the mutant.O.I.H.G.S.X.
0.3439.80.90At4g39850830144PXA1 (PEROXISOMAL ABC TRANSPORTER 1)Encodes a peroxisomal protein of the ATP binding cassette (ABC) transporter class (PMP subfamily) with significant identity to the human X-linked adrenoleukodystrophy protein (ALDP). The gene product promotes germination and represses embryo dormancy. ABI3, ABA1, FUS3 and LEC1 are epistatic to this gene. Mutants accumulate fatty acyl CoA suggesting a defect in uptake of fatty acyl CoA into the peroxisome.O.I.H.G.S.X.
0.3338.10.89At3g60350825206armadillo/beta-catenin repeat family protein / F-box family proteinARABIDILLO-2 and its homolog, ARABIDILLO -1, are unique among Arabidopsis Arm-repeat proteins in having an F-box motif and fall into a phylogenetically distinct subgroup from other plant Arm-repeat proteins Similar to arm repeat protein in rice and armadillo/beta-catenin repeat family protein / F-box family protein in Dictyostelium. ARABIDILLO-2 promote lateral root development. Mutant plants form fewer lateral roots, while ARABIDILLO-2-overexpressing lines produce more lateral roots than wild-type seedlings.O.I.H.G.S.X.
0.3338.10.89At1g67580843079protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cytosol;MOPFBVAO.I.H.G.S.X.
0.3133.80.90At4g05420825890DDB1A (DAMAGED DNA BINDING PROTEIN 1A)Structurally similar to damaged DNA binding proteins.DDB1a is part of a 350 KDa nuclear localized DET1 protein complex. This complex may physically interact with histone tails and while bound to chromatin- repress transcription of genes involved in photomorphogenesis.O.I.H.G.S.X.
0.3032.10.90At3g15380820777choline transporter-relatedF:unknown;P:biological_process unknown;C:plasma membrane;MOFPO.I.H.G.S.X.
0.3032.10.90At2g25760817118protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:unknown;MBOPFVAO.I.H.G.S.X.
0.2930.30.89At5g48120834864bindingF:binding;P:unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.2930.30.89At2g16940816197RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:mRNA processing;C:nucleus;MOFPBVAO.I.H.G.S.X.
0.2830.30.89At1g80930844433MIF4G domain-containing protein / MA3 domain-containing proteinF:protein binding, RNA binding, binding;P:translation, RNA metabolic process;C:cytosol, nucleus;MOFBPVAO.I.H.G.S.X.
0.2830.30.89At2g17510816257EMB2763 (EMBRYO DEFECTIVE 2763)F:ribonuclease activity, RNA binding;P:unknown;C:unknown;BOMFPAVO.I.H.G.S.X.
0.2830.30.89At5g46190834661KH domain-containing proteinF:RNA binding, nucleic acid binding;P:biological_process unknown;C:unknown;MPFOBO.I.H.G.S.X.
0.2830.30.91At2g26350817175PEX10Zinc-binding peroxisomal integral membrane protein (PEX10). Inserted directly from the cytosol into peroxisomes and is involved in importing proteins into the peroxisome. Required for embryogenesis.O.I.H.G.S.X.
0.2830.30.90At2g36720818244PHD finger transcription factor, putativeF:protein binding, DNA binding, zinc ion binding;P:regulation of transcription, DNA-dependent;C:nucleus;MPFOO.I.H.G.S.X.
0.2726.20.89At1g33980840295Smg-4/UPF3 family proteinInvolved in mRNA surveillance, detects exported mRNAs with truncated open reading frames and initiates nonsense-mediated mRNA decay (NMD)O.I.H.G.S.X.
0.2726.20.90At1g72560843588PSD (PAUSED)Encodes a karyopherin, specifically the Arabidopsis ortholog of LOS1/XPOT, a protein that mediates nuclear export of tRNAs in yeast and mammals. PSD is capable of rescuing the tRNA export defect of los1 in S. cerevisiae. psd mutants display disrupted initiation of the shoot apical meristem and delay leaf initiation after germination; they also display delayed transition from vegetative to reproductive development.O.I.H.G.S.X.
0.2726.20.89At4g26720828779PPX1 (PROTEIN PHOSPHATASE X 1)Encodes catalytic subunit of protein phosphatase X. Expressed at very low levels in A. thaliana flowers, leaves, stems and roots.O.I.H.G.S.X.
0.2624.40.90At1g79810844320TED3 (REVERSAL OF THE DET PHENOTYPE 3)Dominant suppressor of det1 phenotypes. Encodes a peroxisomal protein essential for Arabidopsis growth. Inserted directly from the cytosol into peroxisomes.O.I.H.G.S.X.
0.2319.30.89At1g55325841978-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MBPOFO.I.H.G.S.X.
0.2319.30.89At5g63200836441tetratricopeptide repeat (TPR)-containing proteinF:binding;P:biological_process unknown;C:cellular_component unknown;OBMAFPO.I.H.G.S.X.
0.2319.30.89At3g22170821781FHY3 (FAR-RED ELONGATED HYPOCOTYLS 3)A component of the PHYA signaling network, mediates the FR-HIR response to far-red light in concert with FAR1.O.I.H.G.S.X.
0.2319.30.89At2g25740817117ATP-dependent protease La (LON) domain-containing proteinF:ATP-dependent peptidase activity;P:N-terminal protein myristoylation, ATP-dependent proteolysis;C:cellular_component unknown;BOMPFO.I.H.G.S.X.
0.2217.50.91At3g14860820715NHL repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BOPAMO.I.H.G.S.X.
0.2115.80.89At5g35430833507bindingF:binding;P:biological_process unknown;C:cellular_component unknown;MPOBFO.I.H.G.S.X.
0.2115.80.89At2g01270814654AtQSOX2 (quiescin-sulfhydryl oxidase 2)Encodes a protein disulfide isomerase-like (PDIL) protein, a member of a multigene family within the thioredoxin (TRX) superfamily. This protein also belongs to the quiescin-sulfhydryl oxidase (QSOX) family, which possess an Erv1-like domain at the COOH terminus in addition to a TRX domain.O.I.H.G.S.X.
0.2115.80.89At1g55090841952carbon-nitrogen hydrolase family proteinF:hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, NAD+ synthase (glutamine-hydrolyzing) activity, ATP binding;P:nitrogen compound metabolic process, NAD biosynthetic process;C:cellular_component unknown;BOAMFPO.I.H.G.S.X.
0.2115.80.90At1g63770842681peptidase M1 family proteinF:metallopeptidase activity, zinc ion binding;P:response to cadmium ion, proteolysis;C:in 6 components;BOMFPAO.I.H.G.S.X.
0.2014.40.89At3g08850820032RAPTOR1Encodes one of two Arabidopsis RAPTOR/KOG1 homologs. RAPTOR proteins are binding partners of the target of rapamycin kinase that is present in all eukaryotes and play a central role in the stimulation of cell growth and metabolism in response to nutrients. Mutants show embryo lethal phenotype which occurs at pre-globular stage. May interact with TOR kinase in a rapamycin like signaling pathway. Interacts with TOR and S6K1 in vivo. Overexpression of RAPTOR1 rendered the S6K1 osmotic stress insensitive.O.I.H.G.S.X.
0.2014.40.89At1g14510838013AL7 (ALFIN-LIKE 7)AL7 encodes a member of the Alfin-Like family of nuclear-localized PhD domain containing homeodomain proteins. Binds to H3K4 di or trimethylated DNA.O.I.H.G.S.X.
0.2014.40.89At3g20970821647NFU4Encodes a protein containing the NFU domain that may be involved in iron-sulfur cluster assembly. Part of a five member gene family, more closely related to NFU5 than to NFU1,2, and 3. Targeted to the mitochondrion.O.I.H.G.S.X.
0.1912.70.89At4g32050829336neurochondrin family proteinF:binding;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.1912.70.89At5g28850833004calcium-binding EF hand family proteinF:calcium ion binding;P:biological_process unknown;C:endomembrane system;MOPFO.I.H.G.S.X. dehydrogenase/reductase (SDR) family proteinF:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:endoplasmic reticulum, plasma membrane;BOMFPAVO.I.H.G.S.X. family proteinF:molecular_function unknown;P:unknown;C:unknown;MFPOBO.I.H.G.S.X. stress protein (USP) family proteinContains a universal stress protein domain. Protein is phosphorylated in response to Phytophthora infestans zoospores and xylanase.O.I.H.G.S.X.' GAMMAB' regulatory subunit of PP2A (AtB'gamma)O.I.H.G.S.X. (EUKARYOTIC RELEASE FACTOR 1-2)Encodes a eukaryotic release factor one homolog.O.I.H.G.S.X. (Miro-related GTP-ase 1)Encodes a protein with similarity to GTPases that is localized to the mitochondrion. Involved in embryogenesis, pollen tube growth and required for mitochondrial development.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
48.699.8GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
43.199.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.999.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.199.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.099.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.699.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.299.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.899.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.699.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.599.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.599.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.499.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.199.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.899.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.299.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.699.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.499.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.199.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.799.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.599.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
27.099.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
23.099.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
21.199.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
20.999.6GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.599.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
20.399.6GSM284388Arabidopsis GMPE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
16.999.5GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
15.199.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
14.799.4GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.199.4GSM131325AtGen_6-3521_Saltstress-Roots-12.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
12.699.3GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
11.599.3GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.299.2GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.999.1GSM131321AtGen_6-3421_Saltstress-Roots-6.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
9.499.1GSM131329AtGen_6-3621_Saltstress-Roots-24.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
9.499.1GSM13779Dexamethasone plus cycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
9.299.1GSM131322AtGen_6-3422_Saltstress-Roots-6.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
8.799.0GSM131697ATGE_81_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
8.699.0GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
8.699.0GSM131698ATGE_81_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1113GO:0016558The import of proteins into the peroxisomal matrix. A peroxisome targeting signal (PTS) binds to a soluble receptor protein in the cytosol, and the resulting complex then binds to a receptor protein in the peroxisome membrane and is imported.Link to AmiGO
0.1084GO:0006635A fatty acid oxidation process that results in the complete oxidation of a long-chain fatty acid. Fatty acid beta-oxidation begins with the addition of coenzyme A to a fatty acid, and occurs by successive cycles of reactions during each of which the fatty acid is shortened by a two-carbon fragment removed as acetyl coenzyme A; the cycle continues until only two or three carbons remain (as acetyl-CoA or propionyl-CoA respectively).Link to AmiGO
0.0632GO:0007031A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a peroxisome. A peroxisome is a small, membrane-bounded organelle that uses dioxygen (O2) to oxidize organic molecules.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.042203018RNA degradationLink to KEGG PATHWAY
0.036100760Nicotinate and nicotinamide metabolismLink to KEGG PATHWAY
0.025103022Basal transcription factorsLink to KEGG PATHWAY

Inter-species module comparison

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

Back to the CoP portal site

Back to the KAGIANA project homepage