Co-expression analysis

Gene ID At4g14790
Gene name ATSUV3
Module size 58 genes
NF 0.32
%ile 40.4



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
1.00100.01.00At4g14790827134ATSUV3encodes a nuclear-encoded DExH box RNA helicase, which is localized to mitochondria and whose in vitro ATPase activity is stimulated with mitochondrial RNA.O.I.H.G.S.X.
0.5873.80.90At3g08960820048binding / protein transporterF:protein transporter activity, binding;P:intracellular protein transport, protein import into nucleus, docking;C:nucleus, nuclear pore, cytoplasm;MFOPO.I.H.G.S.X.
0.5469.50.90At3g27325822352hydrolase, acting on ester bondsF:hydrolase activity, acting on ester bonds;P:intracellular protein transport, GPI anchor metabolic process;C:endoplasmic reticulum, plasma membrane;FMPBOO.I.H.G.S.X.
0.5469.50.90At5g51690835243ACS12Encodes an aminotransferase with broad specificity for aspartate and aromatic amino aids such as tyrosine and phenylalanine. It does not act on branched chain amino acids and does not have ACC synthase activity.O.I.H.G.S.X.
0.5368.60.90At4g31150829243endonuclease V family proteinF:endonuclease activity;P:DNA repair;C:cellular_component unknown;BAOMPFO.I.H.G.S.X.
0.4862.50.90At1g08960837416CAX11member of Potassium-dependent sodium-calcium exchanger like-familyO.I.H.G.S.X.
0.4761.20.89At4g15180827183SDG2 (SET DOMAIN-CONTAINING PROTEIN 2)F:unknown;P:unknown;C:unknown;MOPFBVO.I.H.G.S.X.
0.4659.80.89At4g19490827690protein bindingPutative homolog of yeast Vps54. Thought to associate with POK and ATVPS53 in a plant GARP-like complex involved in the membrane trafficking system.O.I.H.G.S.X.
0.4659.80.90At3g44530823578HIRA (Arabidopsis homolog of histone chaperone HIRA)Encodes a nuclear localized WD-repeat containing protein involved in negative regulation of knox gene expression via epigenetic mechanism of chromatin re-organization. Interacts physically and genetically with AS1. Expressed in meristem and leaf primordia. Homozygous mutants are embryo lethal. Phenotype of cosuppressed lines is variable but show effects on leaf development similar to as1/as2.O.I.H.G.S.X.
0.4457.20.89At3g18350821364unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4355.30.89At1g51390841563NFU5Encodes 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 NFU4 than to NFU1,2, and 3. Targeted to the mitochondrion.O.I.H.G.S.X.
0.4253.90.91At4g15020827161DNA binding / protein dimerizationF:protein dimerization activity, DNA binding;P:biological_process unknown;C:cellular_component unknown;POMO.I.H.G.S.X.
0.4253.90.91At1g30970839984SUF4 (suppressor of FRIGIDA4)Encodes SUF4 (SUPPRESSOR of FRI 4), a putative zinc-finger-containing transcription factor that is required for delayed flowering in winter-annual Arabidopsis. suf4 mutations strongly suppress the late-flowering phenotype of FRI (FRIGIDA) mutants. suf4 mutants also show reduced H3K4 trimethylation at FLC (FLOWERING LOCUS C), a floral inhibitor. SUF4 may act to specifically recruit a putative histone H3 methyltransferase EFS (EARLY FLOWERING IN SHORT DAYS) and the PAF1-like complex to the FLC locus.O.I.H.G.S.X.
0.4253.90.90At1g08060837322MOM (MORPHEUS MOLECULE)F:unknown;P:chromatin silencing;C:nucleus;MFOBPVAO.I.H.G.S.X.
0.4152.40.89At2g32760817836unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOBO.I.H.G.S.X.
0.4050.80.91At2g31340817692emb1381 (embryo defective 1381)F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;PO.I.H.G.S.X.
0.4050.80.90At4g38110--O.I.H.G.S.X.
0.4050.80.89At1g27410839631DNA cross-link repair protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOBAO.I.H.G.S.X.
0.3948.40.89At1g74860843825unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPFBVO.I.H.G.S.X.
0.3846.70.89At2g17970816307oxidoreductase, 2OG-Fe(II) oxygenase family proteinF:oxidoreductase activity;P:biological_process unknown;C:cellular_component unknown;PMOBO.I.H.G.S.X.
0.3846.70.89At5g19840832104transcription factor jumonji (jmjC) domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MBOFPVO.I.H.G.S.X.
0.3745.00.89At5g47400834787unknown proteinF:molecular_function unknown;P:unknown;C:endomembrane system;MPOO.I.H.G.S.X.
0.3643.60.89At3g05040819666HST (HASTY)Encodes member of importin/exportin family. Involved in timing of shoot maturation. Involved in miRNA transport. Mutants flower early and have small, curled leaves and reduced abundance of certain miRNA species.O.I.H.G.S.X.
0.3643.60.89At5g64390836560HEN4 (HUA ENHANCER 4)encodes a K homology (KH) domain-containing, putative RNA binding protein that interacts with HUA1, a CCCH zinc finger RNA binding protein in the nucleus. HEN4 acts redundantly with HUA1 and HUA2 in the specification of floral organ identity in the third whorl.O.I.H.G.S.X.
0.3541.60.90At3g04970819657zinc finger (DHHC type) family proteinF:zinc ion binding;P:biological_process unknown;C:endomembrane system;MOFPO.I.H.G.S.X.
0.3439.80.89At4g32050829336neurochondrin family proteinF:binding;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.3338.10.90At3g03810821131EDA30 (embryo sac development arrest 30)F:molecular_function unknown;P:N-terminal protein myristoylation, polar nucleus fusion, pollen tube development;C:chloroplast;PO.I.H.G.S.X.
0.3338.10.90At5g45300834566BMY2 (BETA-AMYLASE 2)F:cation binding, beta-amylase activity, catalytic activity;P:cellulose biosynthetic process, carbohydrate metabolic process, polysaccharide catabolic process;C:cellular_component unknown;PMBOFO.I.H.G.S.X.
0.3338.10.89At2g41020818702WW domain-containing proteinF:protein binding;P:biological_process unknown;C:cellular_component unknown;MOFPO.I.H.G.S.X.
0.3235.70.89At2g26350817175PEX10Zinc-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.
0.3032.10.89At3g53090824475UPL7encodes a ubiquitin-protein ligase containing a HECT domain. There are six other HECT-domain UPLs in Arabidopsis.O.I.H.G.S.X.
0.2930.30.89At1g11060837647unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MBPOFO.I.H.G.S.X.
0.2930.30.89At3g19460821480reticulon family protein (RTNLB11)F:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum;MPOFO.I.H.G.S.X.
0.2930.30.89At5g58370835949GTP bindingF:GTP binding;P:unknown;C:intracellular;BOFAPMO.I.H.G.S.X.
0.2830.30.89At5g05920830477DHS (DEOXYHYPUSINE SYNTHASE)Encodes a deoxyhypusine synthase.O.I.H.G.S.X.
0.2830.30.91At1g79810844320TED3 (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.
0.2830.30.89At5g52980835377unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMO.I.H.G.S.X.
0.2726.20.89At5g41480834149GLA1 (GLOBULAR ARREST1)Encodes a dihydrofolate synthetase based on yeast complementation experiments. This protein is involved in folate biosynthesis.O.I.H.G.S.X.
0.2726.20.89At4g28980829019cyclin-dependent kinase-activating kinase 1At / CDK-activating kinase 1At (CAK1)Encodes a CDK-activating kinase that regulates root initial cell differentiation. Phosphorylates CDKD2 and CDKD3, but not CDKD1. Controls CDK activities and basal transcription.O.I.H.G.S.X.
0.2624.40.90At1g22020838807SHM6 (serine hydroxymethyltransferase 6)Encodes a putative serine hydroxymethyltransferase.O.I.H.G.S.X.
0.2624.40.89At5g20980832223ATMS3 (methionine synthase 3)encodes a plastidic methionine synthase, involved in methionine de novo synthesis in the chloroplastO.I.H.G.S.X.
0.2522.60.89At5g01290831240mRNA guanylyltransferase/ phosphatase/ polynucleotide 5'-phosphatase/ protein tyrosine phosphatase/ protein tyrosine/serine/threonine phosphataseF:phosphatase activity, protein tyrosine phosphatase activity, protein tyrosine/serine/threonine phosphatase activity, mRNA guanylyltransferase activity, polynucleotide 5'-phosphatase activity;P:protein amino acid dephosphorylation, mRNA processing, mRNA capping, dephosphorylation;C:nucleus;MOFVPO.I.H.G.S.X.
0.2420.70.89At2g30460817596-F:molecular_function unknown;P:biological_process unknown;C:endomembrane system, membrane;PMOFBO.I.H.G.S.X.
0.2420.70.89At4g01220828028-F:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum;POMO.I.H.G.S.X.
0.2319.30.89At4g32730829409PC-MYB1Encodes a putative c-myb-like transcription factor with three MYB repeats.O.I.H.G.S.X.
0.2217.50.89At2g35100818076ARAD1 (ARABINAN DEFICIENT 1)Putative glycosyltransferase, similar to other CAZy Family 47 proteins. The protein is predicted to be a type 2 membrane protein with a signal anchor and is predicted to be targeted to the secretory pathway and to have a single transmembrane helix near the N terminus; hence, the protein has the features expected for a type II membrane protein targeted to the Golgi vesicles. The gene was shown to be expressed in all tissues but particularly in vascular tissues of leaves and stems.O.I.H.G.S.X.
0.2115.80.89At1g26520839192-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BOFMPAO.I.H.G.S.X.
0.2014.40.89At3g43700823478ATBPM6 (BTB-POZ and MATH domain 6)F:protein binding;P:unknown;C:unknown;MPOFVO.I.H.G.S.X.
0.2014.40.89At5g11380831009DXPS3 (1-deoxy-D-xylulose 5-phosphate synthase 3)Encodes a protein postulated to have 1-deoxy-D-xylulose 5-phosphate synthase activity.O.I.H.G.S.X.
0.2014.40.89At5g46190834661KH domain-containing proteinF:RNA binding, nucleic acid binding;P:biological_process unknown;C:unknown;MPFOBO.I.H.G.S.X.
0.1912.70.89At5g11040830971-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.1912.70.89At5g35430833507bindingF:binding;P:biological_process unknown;C:cellular_component unknown;MPOBFO.I.H.G.S.X.
0.1912.70.89At1g66740842992SGA2Located on the SSL2 region of Arabidopsis thaliana, which is homeologous to the Brassica S locus for self incompatibility. Expressed in both vegetative and reproductive organs suggesting AtSP7 might not be involved in self incompatibility.O.I.H.G.S.X.
0.1912.70.89At5g20200832143nucleoporin-relatedF:molecular_function unknown;P:biological_process unknown;C:chloroplast;OMFBPO.I.H.G.S.X.
0.1811.40.89At3g58050824974unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVAO.I.H.G.S.X.
0.1811.40.89At3g56740824841ubiquitin-associated (UBA)/TS-N domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;FMPOBO.I.H.G.S.X.
0.168.80.89At5g22030832263UBP8 (UBIQUITIN-SPECIFIC PROTEASE 8)F:ubiquitin-specific protease activity, ubiquitin thiolesterase activity;P:ubiquitin-dependent protein catabolic process;C:unknown;MOFPVBO.I.H.G.S.X.
0.168.80.89At4g34840829636ATMTN2F:methylthioadenosine nucleosidase activity;P:nucleoside metabolic process;C:cellular_component unknown;BPOO.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
47.399.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
46.099.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
45.599.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
39.899.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.099.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.799.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
38.699.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.199.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.399.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.699.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.299.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.199.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.999.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.899.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.499.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.899.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
32.199.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.499.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.299.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.399.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.099.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.999.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.599.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.299.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.899.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.099.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
25.199.6GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
22.799.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.099.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
17.399.5GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
14.599.4GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
13.699.4GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
11.899.3GSM311274Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
11.399.3GSM67086Arabidopsis_Stigma02GSE3056Arabidopsis Pollination StudyLink to GEO
11.399.3GSM67087Arabidopsis_Stigma03GSE3056Arabidopsis Pollination StudyLink to GEO
11.099.2GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
10.499.2GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.099.2GSM133773Lindsey_1-25_torpedo-meristem_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.799.1GSM266667Arabidopsis, root cells, columella root cap, -Fe, replicate 2GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
9.299.1E-MEXP-1725-raw-cel-1669614623
8.999.0GSM311281Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
8.799.0GSM184894Arabidopsis, root cells, columella root cap, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
8.799.0GSM266668Arabidopsis, root cells, columella root cap, -Fe, replicate 3GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0622GO: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
0.0542GO: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
0.0492GO:0006397Any process involved in the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.033200270Cysteine and methionine metabolismLink to KEGG PATHWAY
0.031100790Folate biosynthesisLink to KEGG PATHWAY
0.027100670One carbon pool by folateLink 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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