Co-expression analysis

Gene ID At3g43610
Gene name tubulin binding
Module size 54 genes
NF 0.31
%ile 39.8



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
0.7788.01.00At3g43610823458tubulin bindingF:tubulin binding;P:microtubule cytoskeleton organization;C:chloroplast, spindle pole, microtubule organizing center;MFPOO.I.H.G.S.X.
0.5267.40.91At3g22520821823unknown proteinF:unknown;P:biological_process unknown;C:chloroplast stroma, chloroplast, chloroplast envelope;OMBFPAO.I.H.G.S.X.
0.4862.50.92At1g74690843808IQD31 (IQ-domain 31)F:calmodulin binding;P:biological_process unknown;C:cytosol, plasma membrane;MOFPBVAO.I.H.G.S.X.
0.4761.20.91At2g20000816519HBT (HOBBIT)Required for cell division and cell differentiation in meristems. Encodes a homolog of the CDC27 subunit of the anaphase-promoting complex (APC). Unlike other CDC27 homologs in Arabidopsis, its transcription is cell cycle regulated. Strong hbt mutants give rise to seedlings that lack an anatomically recognizable quiescent center and differentiated columella root cap cells, the cell types derived from the wild-type hypophysis. Furthermore, they have no mitotically active root meristem and lack a differentiated lateral root cap.O.I.H.G.S.X.
0.4659.80.91At2g45700819178sterile alpha motif (SAM) domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPFBAO.I.H.G.S.X.
0.4659.80.91At5g13980831246glycosyl hydrolase family 38 proteinF:in 6 functions;P:mannose metabolic process, carbohydrate metabolic process;C:apoplast, cell wall, plasma membrane, vacuole, plant-type cell wall;MOPBFAO.I.H.G.S.X.
0.4355.30.91At4g39170830072SEC14 cytosolic factor, putative / phosphoglyceride transfer protein, putativeF:phosphatidylinositol transporter activity, transporter activity;P:transport;C:plasma membrane;MPFOO.I.H.G.S.X.
0.4253.90.91At5g51660835240CPSF160F:nucleic acid binding;P:mRNA cleavage, mRNA polyadenylation;C:nucleus;MFPOO.I.H.G.S.X.
0.4253.90.90At1g01510839401AN (ANGUSTIFOLIA)Encodes a homolog of human CtBP. Mutant has longer and thicker leaves than wild type. Involved in controlling polar cell expansion in the leaf width direction.O.I.H.G.S.X.
0.4152.40.90At4g32420829377peptidyl-prolyl cis-trans isomerase cyclophilin-type family proteinF:peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:unknown;MOBFPVAO.I.H.G.S.X.
0.4050.80.91At5g04940830376SUVH1 (SU(VAR)3-9 HOMOLOG 1)Encodes a SU(VAR)3-9 homolog, a SET domain protein. Known SET domain proteins are involved in epigenetic control of gene expression and act as histone methyltransferases. There are 10 SUVH genes in Arabidopsis and members of this subfamily of the SET proteins have an additional conserved SRA domain.O.I.H.G.S.X.
0.3846.70.91At3g61650825338TUBG1 (GAMMA-TUBULIN)Required for centrosomal and noncentrosomal microtubule nucleation. Involved in specification of cell identity, such as stomatal patterning. Constitutively expressed throughout plant.O.I.H.G.S.X.
0.3745.00.90At4g02680828205EOL1 (ETO1-LIKE 1)Encodes a paralog of ETO1, which is a negative regulator of ACS5 (a key enzyme in ethylene biosynthesis pathway). EOL1 also interacts with and inhibits the activity of ACS5.O.I.H.G.S.X.
0.3745.00.92At3g16060820851kinesin motor family proteinF:microtubule motor activity, ATP binding;P:microtubule-based movement;C:nucleus, plasma membrane;MOPFBO.I.H.G.S.X.
0.3745.00.91At5g53620835444unknown proteinF:unknown;P:biological_process unknown;C:unknown;MOBFPAVO.I.H.G.S.X.
0.3745.00.93At1g55130841956endomembrane protein 70, putativeF:unknown;P:unknown;C:integral to membrane, Golgi apparatus;MPOFBO.I.H.G.S.X.
0.3541.60.90At1g60560842351SWIM zinc finger family proteinF:zinc ion binding;P:biological_process unknown;C:cellular_component unknown;PMFO.I.H.G.S.X.
0.3439.80.91At3g18210821348oxidoreductase, 2OG-Fe(II) oxygenase family proteinF:oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, oxidoreductase activity, iron ion binding;P:protein metabolic process;C:cellular_component unknown;MPOBVO.I.H.G.S.X.
0.3439.80.91At5g08390830737-F:molecular_function unknown;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFOPBAVO.I.H.G.S.X.
0.3338.10.91At4g16650827366unknown proteinF:molecular_function unknown;P:biological_process unknown;C:Golgi apparatus;PO.I.H.G.S.X.
0.3235.70.91At5g60940836215transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex, heterotrimeric G-protein complex;MFBOPAO.I.H.G.S.X.
0.3133.80.92At1g54610841903protein kinase family proteinF:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation, N-terminal protein myristoylation;C:plasma membrane;MPOFBVAO.I.H.G.S.X.
0.3133.80.91At1g53050841739protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation, N-terminal protein myristoylation;C:plasma membrane;MPOFBVAO.I.H.G.S.X.
0.3032.10.91At3g60740825245TTN1 (TITAN 1)Encodes tubulin-folding cofactor D. Mutants arrest during embryogenesis with embryos that are small, mushroom-shaped ('pilz') and consist of only one or few large cells each containing one or more variably enlarged nuclei and often cell wall stubs. Gene product necessary for continuous microtubule organization.O.I.H.G.S.X.
0.3032.10.90At3g10140820177RECA3 (recA homolog 3)F:nucleoside-triphosphatase activity, DNA-dependent ATPase activity, DNA binding, nucleotide binding, ATP binding;P:DNA repair, SOS response, DNA recombination, DNA metabolic process;C:mitochondrion;BOAFMPVO.I.H.G.S.X.
0.3032.10.90At4g33200829456XI-Imember of Myosin-like proteinsO.I.H.G.S.X.
0.3032.10.90At4g39680830123SAP domain-containing proteinF:DNA binding, nucleic acid binding;P:biological_process unknown;C:cytosol, nucleus, chloroplast;MPOFBVAO.I.H.G.S.X.
0.3032.10.91At4g11790826785Ran-binding protein 1 domain-containing protein / RanBP1 domain-containing proteinF:molecular_function unknown;P:intracellular transport;C:cellular_component unknown;OMBFPVAO.I.H.G.S.X.
0.3032.10.90At2g18850816400-F:molecular_function unknown;P:biological_process unknown;C:unknown;MPFOO.I.H.G.S.X.
0.2930.30.91At5g09860830846nuclear matrix protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPAO.I.H.G.S.X.
0.2930.30.90At1g74800843819galactosyltransferase family proteinF:transferase activity, transferring hexosyl groups, transferase activity, transferring glycosyl groups;P:protein amino acid glycosylation;C:membrane;MPOFBO.I.H.G.S.X.
0.2930.30.90At5g27740832836EMB2775 (EMBRYO DEFECTIVE 2775)F:nucleoside-triphosphatase activity, DNA binding, nucleotide binding;P:DNA replication;C:unknown;OBMAFPVO.I.H.G.S.X.
0.2930.30.90At5g63440836463unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOFO.I.H.G.S.X.
0.2930.30.90At1g18450838425ATARP4Encodes a gene similar to actin-related proteins in other organisms. Member of nuclear ARP family of genes. Component of chromatin remodeling complexes, involved in chromatin-mediated gene regulation. Phenotype of the arp4-1 mutant allele revealed partial sterility due to defects in anther development. Targeting the distinct, 3' UTR of AtARP4 transcripts with RNA interference caused a drastic reduction in the level of AtARP4 protein expression, and resulted in strong pleiotropic phenotypes such as altered organization of plant organs, early flowering, delayed flower senescence and high levels of sterility. Western blot analysis and immunolabelling demonstrated a clear correlation between reductions in the level of AtARP4 expression and severity of the phenotypes.O.I.H.G.S.X.
0.2830.30.91At3g61240825296DEAD/DEAH box helicase, putative (RH12)F:helicase activity, ATP-dependent helicase activity, ATP binding, nucleic acid binding;P:unknown;C:unknown;OBMFPAVO.I.H.G.S.X.
0.2830.30.90At2g38650818447GAUT7 (GALACTURONOSYLTRANSFERASE 7)F:polygalacturonate 4-alpha-galacturonosyltransferase activity, transferase activity, transferring glycosyl groups;P:carbohydrate biosynthetic process;C:Golgi apparatus;PBMFOVO.I.H.G.S.X.
0.2726.20.92At3g12010820375-F:molecular_function unknown;P:biological_process unknown;C:unknown;MOPO.I.H.G.S.X.
0.2726.20.90At5g64610836582HAM1 (HISTONE ACETYLTRANSFERASE OF THE MYST FAMILY 1)Encodes an enzyme with histone acetyltransferase activity. HAM1 primarily acetylate histone H4, but also display some ability to acetylate H3. Prior acetylation of lysine 5 on histone H4 reduces radioactive acetylation by either HAM1. HAM1 acetylates histone H4 lysine 5.O.I.H.G.S.X.
0.2726.20.91At1g73720843707transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFOBPAVO.I.H.G.S.X.
0.2624.40.91At5g38880833879unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAO.I.H.G.S.X.
0.2624.40.92At5g27970832867bindingF:binding;P:biological_process unknown;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.2624.40.90At5g04510830330PDK1 (3'-PHOSPHOINOSITIDE-DEPENDENT PROTEIN KINASE 1)Encodes 3-phosphoinositide-dependent protein kinase that contains pleckstrin homology domain and binds 3-phosphoinositides. It activates the protein kinase AGC2-1 in a phosphatidic acid dependent manner. Phosphorylates S6K1. Interacts with PID, and transphosphorylation by PDK1 increases PID autophosphorylation.O.I.H.G.S.X.
0.2624.40.91At1g26170839158binding / protein transporterF:protein transporter activity, binding;P:intracellular protein transport, protein import into nucleus, docking;C:nucleus, nuclear pore, cytoplasm;MFPOO.I.H.G.S.X.
0.2522.60.90At1g24120839024ARL1 (ARG1-LIKE 1)encodes a DnaJ-like protein similar to ARG1 and ARL2 that are both involved in root and hypocotyl gravitropism response. However, null mutation in this gene does not result in defects in gravitropism. Gene is expressed in all tissues examined.O.I.H.G.S.X.
0.2420.70.90At5g63110836431HDA6 (HISTONE DEACETYLASE 6)RPD3-like histone deacetylase. HDA6 mutations specifically increase the expression of auxin-responsive transgenes, suggesting a role in transgene silencing.O.I.H.G.S.X.
0.2420.70.90At1g79990844339protein binding / structural moleculeF:protein binding, structural molecule activity;P:intracellular protein transport, vesicle-mediated transport;C:membrane coat, endomembrane system, COPI vesicle coat;MFOBPAVO.I.H.G.S.X.
0.2319.30.91At2g15530816045zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;MPOFBVO.I.H.G.S.X.
0.2115.80.90At1g08660837388glycosyl transferase family 29 protein / sialyltransferase family proteinF:transferase activity, transferring glycosyl groups, sialyltransferase activity;P:protein amino acid glycosylation;C:Golgi apparatus, membrane;MPOVO.I.H.G.S.X.
0.2115.80.90At4g34430829594CHB3Member of a small family of SWI3-like genes in Arabidopsis. Referred to as CHB4 in Zhou et al. (2002).O.I.H.G.S.X.
0.2115.80.92At3g51310824294VPS35C (VPS35 HOMOLOG C)Homolog of yeast retromer subunit VPS35. Part of a retromer-like protein complex involved in endosome to lysosome protein transport.O.I.H.G.S.X.
0.2014.40.90At1g21710838775OGG1 (8-OXOGUANINE-DNA GLYCOSYLASE 1)Encodes 8-oxoguanine-DNA glycosylase. DNA repair enzyme.O.I.H.G.S.X.
0.2014.40.91At5g17070831570unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.2014.40.90At1g50500841472HIT1 (HEAT-INTOLERANT 1)encodes a member of VPS53 family protein involved in the retrograde trafficking of vesicles to the late Golgi. Mutants in this gene are more sensitive to heat and osmotic stress.O.I.H.G.S.X.
0.1811.40.91At5g13260831167unknown proteinF:unknown;P:biological_process unknown;C:unknown;MFOPBAVO.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
42.899.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.599.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.999.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.399.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.499.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
36.699.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.699.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.499.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.399.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.499.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.799.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.099.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.499.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.699.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.099.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.499.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.399.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.799.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.999.7GSM311275Laser capture microdissected (LCM) micropylar endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
26.499.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.199.7GSM311276Laser capture microdissected (LCM) micropylar endospermr at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
24.899.6GSM284387Arabidopsis GSUS4bGSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
24.799.6GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
22.199.6GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
21.799.6GSM284386Arabidopsis GSUS3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
18.899.5GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
16.799.5GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
15.799.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.399.4GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.699.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
14.599.4GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
14.299.4GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.099.4GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.799.3GSM311291Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
12.599.3GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
11.999.3E-MEXP-1138-raw-cel-1432773322
11.099.2GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.899.2E-MEXP-807-raw-cel-1173273196
10.699.2GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.599.2E-ATMX-35-raw-cel-1574334816
10.299.2E-MEXP-509-raw-cel-829148561
10.199.2E-MEXP-1138-raw-cel-1432773258
9.399.1E-ATMX-35-raw-cel-1574334832
9.099.1GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
8.699.0GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
8.699.0GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0562GO:0000226A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising microtubules and their associated proteins.Link to AmiGO
0.0532GO:0000910A cellular process resulting in the division of the cytoplasm of a cell and its separation into two daughter cells. Cytokinesis usually occurs after growth, replication, and segregation of cellular components.Link to AmiGO
0.0442GO:0006486The addition of a sugar unit to a protein amino acid, e.g. the addition of glycan chains to proteins.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.025103430Mismatch repairLink to KEGG PATHWAY
0.022103030DNA replicationLink to KEGG PATHWAY
0.022103410Base excision repairLink 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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