Co-expression analysis

Gene ID At4g13960
Gene name F-box family protein
Module size 53 genes
NF 0.76
%ile 92.8



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
0.7486.11.00At4g13960827030F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.8894.00.76At2g30630817613unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POBO.I.H.G.S.X.
0.8592.40.73At3g51490824312TMT3 (TONOPLAST MONOSACCHARIDE TRANSPORTER3)F:carbohydrate transmembrane transporter activity, sugar:hydrogen symporter activity, nucleoside transmembrane transporter activity;P:in 6 processes;C:plant-type vacuole membrane, membrane;BFMPOAO.I.H.G.S.X.
0.8592.40.73At5g25400832612phosphate translocator-relatedF:organic anion transmembrane transporter activity;P:unknown;C:endomembrane system;PMFOBO.I.H.G.S.X.
0.8592.40.70At1g24400839057LHT2 (LYSINE HISTIDINE TRANSPORTER 2)High-affinity transporter for neutral and acidic amino acids, expressed in tapetum tissue of anthersO.I.H.G.S.X.
0.8491.90.72At3g18360821365VQ motif-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOFBVAO.I.H.G.S.X.
0.8491.90.70At1g32250840117calmodulin, putativeF:calcium ion binding;P:biological_process unknown;C:cellular_component unknown;MFPOBO.I.H.G.S.X.
0.8391.40.67At4g18920827627unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPFO.I.H.G.S.X.
0.8391.40.63At1g22150838820SULTR1sulfate transporter Sultr1;3O.I.H.G.S.X.
0.8290.90.70At1g07850837300transferase, transferring glycosyl groupsF:transferase activity, transferring glycosyl groups;P:N-terminal protein myristoylation;C:chloroplast;MPFOO.I.H.G.S.X.
0.8290.90.73At5g03250831894phototropic-responsive NPH3 family proteinF:protein binding, signal transducer activity;P:response to light stimulus;C:cellular_component unknown;PMO.I.H.G.S.X.
0.8190.40.70At2g04020814928GDSL-motif lipase/hydrolase family proteinF:lipase activity, hydrolase activity, acting on ester bonds, carboxylesterase activity;P:N-terminal protein myristoylation, lipid metabolic process;C:endomembrane system;PBMO.I.H.G.S.X.
0.8190.40.70At3g17630821030ATCHX19 (CATION/H+ EXCHANGER 19)member of Putative Na+/H+ antiporter familyO.I.H.G.S.X.
0.8089.80.66At1g72960843627root hair defective 3 GTP-binding (RHD3) family proteinF:nucleotide binding;P:unknown;C:cellular_component unknown;OFPMBO.I.H.G.S.X.
0.8089.80.71At4g11030826704long-chain-fatty-acid--CoA ligase, putative / long-chain acyl-CoA synthetase, putativeF:catalytic activity;P:fatty acid biosynthetic process;C:unknown;BOMFPAVO.I.H.G.S.X.
0.7989.10.65At3g08560820003VHA-E2 (VACUOLAR H+-ATPASE SUBUNIT E ISOFORM 2)F:hydrogen-exporting ATPase activity, phosphorylative mechanism, proton-transporting ATPase activity, rotational mechanism;P:ATP synthesis coupled proton transport;C:vacuole, mitochondrial proton-transporting ATP synthase complex;MOFPABO.I.H.G.S.X.
0.7989.10.65At3g17720821040pyridoxal-dependent decarboxylase family proteinF:pyridoxal phosphate binding, carboxy-lyase activity, catalytic activity, glutamate decarboxylase activity;P:amino acid metabolic process, carboxylic acid metabolic process, glutamate metabolic process;C:unknown;BFPAOMO.I.H.G.S.X.
0.7989.10.65At4g02140827460unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;PO.I.H.G.S.X.
0.7989.10.68At4g37840829940HKL3 (HEXOKINASE-LIKE 3)Encodes a putative hexokinase.O.I.H.G.S.X.
0.7989.10.63At2g07560815329AHA6 (Arabidopsis H(+)-ATPase 6)F:ATPase activity;P:cation transport, metabolic process, ATP biosynthetic process;C:plasma membrane, membrane;BMOFPAVO.I.H.G.S.X.
0.7989.10.65At4g25950828701VATG3 (vacuolar ATP synthase G3)V-ATPase G-subunit like proteinO.I.H.G.S.X.
0.7989.10.67At1g22760838882PAB3 (POLY(A) BINDING PROTEIN 3)Putative poly(A) binding protein May there fore function in posttranscriptional regulation, including mRNA turnover and translational initiation. Expression detected only in floral organs.O.I.H.G.S.X.
0.7888.60.64At4g16480827346INT4 (INOSITOL TRANSPORTER 4)Encodes a high affinity H+:myo-inositol symporter. The only other compound shown to be transported was pinitol, a methylated derivative of myo-inositol.O.I.H.G.S.X.
0.7888.60.69At1g54560841898XIEmember of Myosin-like proteinsO.I.H.G.S.X.
0.7888.60.64At4g08670826433protease inhibitor/seed storage/lipid transfer protein (LTP) family proteinF:lipid binding;P:lipid transport;C:anchored to membrane;OPMBFVO.I.H.G.S.X.
0.7888.60.67At4g10440826636dehydration-responsive family proteinF:unknown;P:unknown;C:unknown;PBOAO.I.H.G.S.X.
0.7788.00.68At2g16120816109mannitol transporter, putativeF:carbohydrate transmembrane transporter activity, sugar:hydrogen symporter activity;P:transport, transmembrane transport;C:integral to membrane, membrane;BFMOPAVO.I.H.G.S.X.
0.7788.00.64At2g16750816176protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVAO.I.H.G.S.X.
0.7788.00.65At3g21970821756receptor-like protein kinase-relatedF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.7788.00.67At2g22950816826calcium-transporting ATPase, plasma membrane-type, putative / Ca2+-ATPase, putative (ACA7)F:calmodulin binding, calcium-transporting ATPase activity;P:calcium ion transport, cation transport, metabolic process, ATP biosynthetic process;C:membrane;BMOFPAVO.I.H.G.S.X.
0.7788.00.69At5g66020836732ATSAC1B (SUPPRESSOR OF ACTIN 1B)Mutants in this gene are unable to express female sterility in response to beta-aminobutyric acid, as wild type plants do. non-consensus AT donor splice site at exon 7, TA donor splice site at exon 10, AT acceptor splice at exon 13.O.I.H.G.S.X.
0.7687.40.69At2g30290817579vacuolar sorting receptor, putativeF:calcium ion binding;P:protein targeting to vacuole;C:integral to plasma membrane, Golgi transport complex;MOPBAO.I.H.G.S.X.
0.7687.40.62At1g04670839451unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PAFO.I.H.G.S.X.
0.7687.40.64At2g33690817934late embryogenesis abundant protein, putative / LEA protein, putativeF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7687.40.64At1g18280838408protease inhibitor/seed storage/lipid transfer protein (LTP) family proteinF:lipid binding;P:lipid transport;C:anchored to membrane;POBMO.I.H.G.S.X.
0.7687.40.62At3g12660820446FLA14 (FASCICLIN-LIKE ARABINOGALACTAN PROTEIN 14 PRECURSOR)fasciclin-like arabinogalactan-protein, family (FLA14)O.I.H.G.S.X.
0.7586.90.68At3g19090821444RNA-binding protein, putativeF:RNA binding, nucleotide binding, nucleic acid binding;P:RNA processing;C:ribonucleoprotein complex, nucleus;MPOFBO.I.H.G.S.X.
0.7586.90.64At3g53080824474galactose-binding lectin family proteinF:sugar binding, beta-galactosidase activity;P:lactose catabolic process, using glucoside 3-dehydrogenase, carbohydrate metabolic process, lactose catabolic process via UDP-galactose, lactose catabolic process;C:endomembrane system, beta-galactosidase complex;POMBO.I.H.G.S.X.
0.7486.10.65At3g05960819766STP6 (SUGAR TRANSPORTER 6)Encodes a hexose sugar transporter that is expressed in pollen. STP6 may play a role in providing sugars during late pollen maturation or pollen tube germination.O.I.H.G.S.X.
0.7486.10.71At3g29070822551protein transmembrane transporterF:protein transmembrane transporter activity;P:intracellular protein transport, transport;C:mitochondrion, integral to membrane, membrane;MFPOO.I.H.G.S.X.
0.7486.10.66At1g68750843206ATPPC4Encodes one of four Arabidopsis phosphoenolpyruvate carboxylase proteins.O.I.H.G.S.X.
0.7486.10.65At2g32890817850RALFL17 (RALF-LIKE 17)Member of a diversely expressed predicted peptide family showing sequence similarity to tobacco Rapid Alkalinization Factor (RALF), and is believed to play an essential role in the physiology of Arabidopsis. Consists of a single exon and is characterized by a conserved C-terminal motif and N-terminal signal peptide. This gene is contained within a highly AT-rich repetitive sequence region.O.I.H.G.S.X.
0.7284.80.67At1g26320839174NADP-dependent oxidoreductase, putativeF:oxidoreductase activity, binding, catalytic activity, zinc ion binding;P:response to oxidative stress;C:unknown;BOMFPAO.I.H.G.S.X.
0.7284.80.65At5g25550832630leucine-rich repeat family protein / extensin family proteinF:structural constituent of cell wall, protein binding;P:biological_process unknown;C:endomembrane system;PMOBFVAO.I.H.G.S.X.
0.7284.80.62At3g51070824271dehydration-responsive protein-relatedF:unknown;P:biological_process unknown;C:unknown;MOBFPVAO.I.H.G.S.X.
0.7184.20.69At5g03620831777subtilase family proteinF:identical protein binding, serine-type endopeptidase activity;P:proteolysis, negative regulation of catalytic activity;C:endomembrane system;BPOFAMO.I.H.G.S.X.
0.7184.20.62At5g57810835890TET15 (TETRASPANIN15)Member of TETRASPANIN familyO.I.H.G.S.X.
0.7083.50.71At3g60100825180CSY5 (citrate synthase 5)F:citrate (SI)-synthase activity, transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer;P:cellular carbohydrate metabolic process, tricarboxylic acid cycle;C:mitochondrion;BOMFAPO.I.H.G.S.X.
0.6781.60.66At1g52570841689PLDALPHA2 (phosphlipase d alpha 2)member of C2-PLD subfamilyO.I.H.G.S.X.
0.6781.60.62At3g09930820154GDSL-motif lipase/hydrolase family proteinF:lipase activity, hydrolase activity, acting on ester bonds, carboxylesterase activity;P:lipid metabolic process;C:endomembrane system;PBOFMO.I.H.G.S.X.
0.6277.30.62At3g23350821916-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO.I.H.G.S.X.
0.6176.70.71At1g08730837394XICClass XI myosin geneO.I.H.G.S.X.
0.5974.70.69At1g20080838597SYTBF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MPFOO.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
84.799.9E-ATMX-35-raw-cel-1574334832
78.999.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
63.499.8E-ATMX-35-raw-cel-1574334800
59.299.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
59.099.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
57.199.8E-ATMX-35-raw-cel-1574334816
56.899.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
55.899.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
54.699.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.899.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
50.699.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.399.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
49.299.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.699.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.199.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
47.299.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.799.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
45.199.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.899.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.799.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.699.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.099.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.999.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.299.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.199.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.599.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.199.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.899.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.499.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.499.5GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.599.4GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
12.799.3GSM133780Lindsey_1-3_globular-apical_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
10.399.2GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.399.1GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
8.999.0GSM184909Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
8.899.0GSM184907Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
8.799.0GSM184912Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0572GO:0006099A nearly universal metabolic pathway in which the acetyl group of acetyl coenzyme A is effectively oxidized to two CO2 and four pairs of electrons are transferred to coenzymes. The acetyl group combines with oxaloacetate to form citrate, which undergoes successive transformations to isocitrate, 2-oxoglutarate, succinyl-CoA, succinate, fumarate, malate, and oxaloacetate again, thus completing the cycle. In eukaryotes the tricarboxylic acid is confined to the mitochondria. See also glyoxylate cycle.Link to AmiGO
0.0572GO:0030048Movement of organelles or other particles along actin filaments, or sliding of actin filaments past each other, mediated by motor proteins.Link to AmiGO
0.0472GO:0006754The chemical reactions and pathways resulting in the formation of ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.031300190Oxidative phosphorylationLink to KEGG PATHWAY
0.024100071Fatty acid metabolismLink to KEGG PATHWAY
0.024100630Glyoxylate and dicarboxylate 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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