Co-expression analysis

Gene ID At5g02280
Gene name synbindin, putative
Module size 61 genes
NF 0.32
%ile 40.8



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
0.8894.01.00At5g02280831680synbindin, putativeF:molecular_function unknown;P:transport, ER to Golgi vesicle-mediated transport;C:cis-Golgi network;MFOPO.I.H.G.S.X.
0.5673.00.91At4g35410829694clathrin adaptor complex small chain family proteinF:protein transporter activity, protein binding;P:intracellular protein transport, transport, vesicle-mediated transport, protein transport;C:membrane coat, clathrin vesicle coat, clathrin coat of trans-Golgi network vesicle, clathrin adaptor complex;MFOPO.I.H.G.S.X.
0.5570.60.93At5g54750835565transport protein particle (TRAPP) component Bet3, putativeF:molecular_function unknown;P:ER to Golgi vesicle-mediated transport;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.5368.60.90At1g34350840336unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.5166.30.92At1g56330842086ATSAR1B (SECRETION-ASSOCIATED RAS 1 B)Encodes a small GTP-binding protein implicated in ER to cis-Golgi transport of other proteins. A member of ARF-like GTPase family. A thaliana has 21 members, in two subfamilies, ARF and ARF-like (ARL) GTPases. The protein is found associated to the ER and free in the cytosol.O.I.H.G.S.X.
0.5166.30.90At5g27490832808integral membrane Yip1 family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPO.I.H.G.S.X.
0.4862.50.92At5g49540835015unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPO.I.H.G.S.X.
0.4761.20.90At2g29390817488SMO2-2 (STEROL 4-ALPHA-METHYL-OXIDASE 2-2)Encodes a sterol 4-alpha-methyl-oxidase, specifically a 4-alpha-methyl-delta-7-sterol-4alpha-methyl-oxidase.O.I.H.G.S.X.
0.4659.80.90At1g77350844071unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MPOO.I.H.G.S.X.
0.4659.80.92At3g25040822095ER lumen protein retaining receptor, putative / HDEL receptor, putativeF:ER retention sequence binding, receptor activity;P:protein retention in ER lumen, protein transport;C:endomembrane system, integral to membrane;MOFPO.I.H.G.S.X.
0.4253.90.91At5g20500832172glutaredoxin, putativeF:electron carrier activity, arsenate reductase (glutaredoxin) activity, protein disulfide oxidoreductase activity;P:cell redox homeostasis;C:endomembrane system;BOPMFVAO.I.H.G.S.X.
0.3948.40.90At1g80500844389-F:molecular_function unknown;P:transport, ER to Golgi vesicle-mediated transport;C:intracellular;MFOPO.I.H.G.S.X.
0.3948.40.90At1g64650842773-F:unknown;P:unknown;C:plasma membrane;BPMOFAO.I.H.G.S.X.
0.3846.70.90At2g47320819345peptidyl-prolyl cis-trans isomerase cyclophilin-type family proteinF:peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:unknown;BOMFPAO.I.H.G.S.X.
0.3745.00.91At1g60660842360CB5LP (CYTOCHROME B5-LIKE PROTEIN)member of Cytochromes b5O.I.H.G.S.X.
0.3745.00.91At3g04830819643bindingF:binding;P:biological_process unknown;C:cellular_component unknown;MOFBAPO.I.H.G.S.X.
0.3745.00.90At1g04340839547lesion inducing protein-relatedF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PBOO.I.H.G.S.X.
0.3643.60.91At4g29480829069mitochondrial ATP synthase g subunit family proteinF:hydrogen ion transmembrane transporter activity;P:proton transport, ATP synthesis coupled proton transport;C:mitochondrion;POO.I.H.G.S.X.
0.3643.60.90At2g44620819070MTACP-1 (MITOCHONDRIAL ACYL CARRIER PROTEIN 1)Encodes a member of the mitochondrial acyl carrier protein (ACP) family. As part of the mitochondrial matrix, it is likely to be involved in fatty acid or lipoic acid biogenesis. Its acylated form is predominantly present in the mitochondrial membrane while the non-acylated form is soluble.O.I.H.G.S.X.
0.3643.60.91At2g29960817546CYP5 (CYCLOPHILIN 5)encodes a cyclophilin protein that exhibits peptidylprolyl cis/trans-isomerase and protein refolding activities that were sensitive to cyclosporin A. The protein interacts with GNOM in vitro and is localized to both the cytosolic and membrane fractions. The gene is expressed in the developing embryo.O.I.H.G.S.X.
0.3643.60.91At5g47570834807unknown proteinF:molecular_function unknown;P:biological_process unknown;C:respiratory chain complex I;POO.I.H.G.S.X.
0.3541.60.91At2g31710817727unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.3541.60.90At1g10630837606ATARFA1F (ARABIDOPSIS THALIANA ADP-RIBOSYLATION FACTOR A1F)A member of ARF GTPase family. A thaliana has 21 members of this family, known to be essential for vesicle coating and uncoating and functions in GTP-binding. Gene encoding ADP-ribosylation factor and similar to other ARFs and ARF-like proteins. The gene is shown to play a role in cell division, cell expansion and cellulose production using antisense construct.O.I.H.G.S.X.
0.3541.60.91At5g14030831251translocon-associated protein beta (TRAPB) family proteinF:molecular_function unknown;P:biological_process unknown;C:plasma membrane;MPOO.I.H.G.S.X.
0.3541.60.90At5g36290833627unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system, membrane;BMOPFAO.I.H.G.S.X.
0.3439.80.91At4g35980829752unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3439.80.91At5g58030835915transport protein particle (TRAPP) component Bet3 family proteinF:molecular_function unknown;P:ER to Golgi vesicle-mediated transport;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.3439.80.90At2g24765817014ARF3 (ADP-RIBOSYLATION FACTOR 3)GTPase required for Golgi targeting of GRIP domain proteins. AtARL1 binds directly to the GRIP domain of AtGRIP in a GTP-dependent mannerO.I.H.G.S.X.
0.3338.10.90At3g09800820138protein bindingF:protein binding;P:intracellular protein transport, transport, vesicle-mediated transport;C:membrane coat, clathrin vesicle coat;MPFOO.I.H.G.S.X.
0.3235.70.91At3g18430821372calcium-binding EF hand family proteinF:calcium ion binding;P:N-terminal protein myristoylation;C:vacuole;MPOFBO.I.H.G.S.X.
0.3133.80.90At5g65650836691unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3133.80.90At3g22845821856emp24/gp25L/p24 protein-relatedF:unknown;P:transport;C:vacuole;MFPOO.I.H.G.S.X.
0.3032.10.91At1g22450838851COX6B (CYTOCHROME C OXIDASE 6B)subunit 6b of cytochrome c oxidaseO.I.H.G.S.X.
0.3032.10.91At1g79260844266unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BMOPO.I.H.G.S.X.
0.3032.10.90At3g12180820395cornichon family proteinF:molecular_function unknown;P:intracellular signaling cascade;C:endomembrane system, membrane;MFPOO.I.H.G.S.X.
0.3032.10.91At1g49140841337NADH-ubiquinone oxidoreductase-relatedF:unknown;P:photorespiration;C:mitochondrion, mitochondrial membrane, respiratory chain complex I;FPMO.I.H.G.S.X.
0.2930.30.90At5g61240836245protein bindingF:protein binding;P:signal transduction;C:Golgi apparatus;PMBOFAO.I.H.G.S.X.
0.2930.30.90At3g05280819692integral membrane Yip1 family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPO.I.H.G.S.X.
0.2930.30.90At5g11640831036-F:unknown;P:unknown;C:unknown;MPOO.I.H.G.S.X.
0.2930.30.90At2g29020817451Rab5-interacting family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.2930.30.90At2g47170819330ARF1A1CGene encoding ADP-ribosylation factor and similar to other ARFs and ARF-like proteins. Members of this family are known to be essential for vesicle coating and uncoating and functions in GTP-binding. The gene is shown to play a role in cell division, cell expansion and cellulose production using antisense construct.O.I.H.G.S.X.
0.2830.30.90At3g04780819638-Encodes a protein with little sequence identity with any other protein of known structure or function. Part of this protein shows a 42% sequence identity with the C-terminal domain of the 32-kD human thioredoxin-like protein.O.I.H.G.S.X.
0.2830.30.90At1g72020843533unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PO.I.H.G.S.X.
0.2830.30.91At2g21160816651translocon-associated protein alpha (TRAP alpha) family proteinF:unknown;P:biological_process unknown;C:chloroplast thylakoid membrane, endoplasmic reticulum, plasma membrane, vacuole;MPFOO.I.H.G.S.X.
0.2726.20.90At5g05010830383clathrin adaptor complexes medium subunit-relatedF:protein binding;P:intracellular protein transport, transport, vesicle-mediated transport;C:membrane;MFOPBO.I.H.G.S.X.
0.2624.40.90At1g34020840299transporter-relatedF:unknown;P:unknown;C:plasma membrane, membrane;PMFOBO.I.H.G.S.X.
0.2624.40.90At5g63510836470GAMMA CAL1 (GAMMA CARBONIC ANHYDRASE LIKE 1)Encodes a mitochondrial gamma carbonic anhydrase-like protein. Component of the NADH dehydrogenase complex.O.I.H.G.S.X.
0.2624.40.90At1g47260841129GAMMA CA2 (GAMMA CARBONIC ANHYDRASE 2)Encodes mitochondrial gamma carbonic anhydrase. Component of the NADH dehydrogenase complex.O.I.H.G.S.X.
0.2624.40.91At5g23550832421-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPO.I.H.G.S.X.
0.2522.60.90At5g05820830467phosphate translocator-relatedF:organic anion transmembrane transporter activity;P:unknown;C:unknown;PMFOBAO.I.H.G.S.X.
0.2319.30.90At4g37830829939cytochrome c oxidase-relatedF:cytochrome-c oxidase activity;P:unknown;C:mitochondrion;MPOO.I.H.G.S.X.
0.2319.30.90At4g38920830047ATVHA-C3 (VACUOLAR-TYPE H(+)-ATPASE C3)F:ATPase activity;P:ATP synthesis coupled proton transport;C:vacuole;MOFBPAO.I.H.G.S.X.
0.2319.30.90At5g38480833836GRF3 (GENERAL REGULATORY FACTOR 3)general regulatory factor, a 14-3-3 geneO.I.H.G.S.X.
0.2319.30.90At1g26750839216unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.2217.50.90At3g52090824372NRPB11Non-catalytic subunit common to nuclear DNA-dependent RNA polymerases II, IV and V; homologous to budding yeast RPB11 and the E. oli RNA polymerase alpha subunit.O.I.H.G.S.X.
0.2014.40.90At5g19760832096dicarboxylate/tricarboxylate carrier (DTC)F:oxidative phosphorylation uncoupler activity, binding;P:transport, mitochondrial transport;C:in 6 components;MFPOO.I.H.G.S.X.
0.1912.70.90At3g56110824777PRA1.B1 (PRENYLATED RAB ACCEPTOR 1.B1)F:molecular_function unknown;P:vesicle-mediated transport;C:endoplasmic reticulum;PMFOO.I.H.G.S.X.
0.1912.70.91At4g32930829430unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOO.I.H.G.S.X.
0.1811.40.90At3g17430821007phosphate translocator-relatedF:organic anion transmembrane transporter activity;P:unknown;C:endomembrane system;PMFOBO.I.H.G.S.X.
0.1811.40.90At5g41760834180nucleotide-sugar transporter family proteinF:nucleotide-sugar transmembrane transporter activity, CMP-sialic acid transmembrane transporter activity;P:carbohydrate transport, nucleotide-sugar transport;C:endomembrane system, integral to membrane, Golgi membrane;MOPFO.I.H.G.S.X.
0.1710.20.90At3g0968082012540S ribosomal protein S23 (RPS23A)F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit, cytosolic ribosome, ribosome, nucleolus;BOPMFAO.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
82.699.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
80.699.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
74.499.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
71.799.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
58.899.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.099.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.699.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.299.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.799.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.799.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
44.899.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.699.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.499.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.499.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.199.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.699.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.199.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.099.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.199.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.899.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.799.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.999.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.199.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.299.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
25.799.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
23.399.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
15.699.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.599.3E-MEXP-849-raw-cel-1181980990
9.599.1GSM133120RIKEN-YAMAUCHI2BGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
9.499.1GSM133119RIKEN-YAMAUCHI2AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
8.899.0E-MEXP-849-raw-cel-1181980998

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0944GO:0006888The directed movement of substances from the endoplasmic reticulum (ER) to the Golgi, mediated by COP II vesicles. Small COP II coated vesicles form from the ER and then fuse directly with the cis-Golgi. Larger structures are transported along microtubules to the cis-Golgi.Link to AmiGO
0.0643GO:0009853A light-dependent catabolic process occurring concomitantly with photosynthesis in plants (especially C3 plants) whereby dioxygen (O2) is consumed and carbon dioxide (CO2) is evolved. The substrate is glycolate formed in large quantities in chloroplasts from 2-phosphoglycolate generated from ribulose 1,5-bisphosphate by the action of ribulose-bisphosphate carboxylase; the glycolate enters the peroxisomes where it is converted by glycolate oxidase to glyoxylate which undergoes transamination to glycine. This then passes into the mitochondria where it is decarboxylated forming one molecule of serine for every two molecules of glycine. This pathway also exists in photosynthetic bacteria.Link to AmiGO
0.0454GO:0016192The directed movement of substances into, out of or within a cell by a cellular process that begins with the formation of membrane-bounded vesicles in which the transported substances are enclosed or located in the vesicle membrane. Vesicles are then targeted to, and fuse with, an acceptor membrane.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.039400190Oxidative phosphorylationLink to KEGG PATHWAY
0.026104650Natural killer cell mediated cytotoxicityLink to KEGG PATHWAY
0.022103020RNA polymeraseLink 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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