Co-expression analysis

Gene ID At3g18480
Gene name AtCASP (Arabidopsis thaliana CCAAT-displacement protein alternatively spliced product)
Module size 30 genes
NF 0.29
%ile 35.5



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
1.00100.01.00At3g18480821377AtCASP (Arabidopsis thaliana CCAAT-displacement protein alternatively spliced product)This gene is predicted to encode a protein that functions as a Golgi apparatus structural component, known as a golgin in mammals and yeast. A fluorescently-tagged version of CASP co-localizes with Golgi markers, and this localization appears to require the C-terminal (565689aa) portion of the protein. The protein is inserted into a membrane in a type II orientation.O.I.H.G.S.X.
0.5267.40.93At2g32850817846protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MOPFBVAO.I.H.G.S.X.
0.4457.20.93At5g51430835217EYE (EMBRYO YELLOW)Encodes a protein that is homologous to Cog7, a subunit of the conserved oligomeric Golgi (COG) complex, which is required for the normal morphology and function of the Golgi apparatus. It is likely to be involved in transport or retention of Golgi-localized proteins and in maintenance of Golgi morphology.O.I.H.G.S.X.
0.4253.90.93At5g04420830321kelch repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cytosol, nucleus;MOPFBVAO.I.H.G.S.X.
0.4050.80.92At3g06580819837GALKEncodes a protein with galactose kinase activity. The gene was shown to complement the yeast Δgal1 mutant defective in the galactokinase gene GAL1.O.I.H.G.S.X.
0.3846.70.92At5g28220832898bindingF:binding;P:biological_process unknown;C:cellular_component unknown;MFOPABO.I.H.G.S.X.
0.3745.00.93At5g63840836504RSW3 (RADIAL SWELLING 3)radial swelling mutant shown to be specifically impaired in cellulose production. Encodes the alpha-subunit of a glucosidase II enzyme.O.I.H.G.S.X.
0.3643.60.93At1g10290837568ADL6 (DYNAMIN-LIKE PROTEIN 6)involved in trafficking from the trans-Golgi Network to the central vacuole.O.I.H.G.S.X.
0.3643.60.92At5g16300831491-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOO.I.H.G.S.X.
0.3643.60.92At5g11560831028catalyticF:catalytic activity;P:unknown;C:endoplasmic reticulum, plasma membrane, vacuole;MFOBPAO.I.H.G.S.X.
0.3541.60.92At3g17900821058unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFOO.I.H.G.S.X.
0.3541.60.92At1g04850839399ubiquitin-associated (UBA)/TS-N domain-containing proteinF:zinc ion binding;P:biological_process unknown;C:intracellular;MOFBPVAO.I.H.G.S.X.
0.3541.60.92At5g61840836306GUT1F:glucuronoxylan glucuronosyltransferase activity, catalytic activity;P:secondary cell wall biogenesis, glucuronoxylan biosynthetic process;C:Golgi apparatus, membrane;PMOBFO.I.H.G.S.X.
0.3541.60.92At2g21390816678coatomer protein complex, subunit alpha, putativeF:protein binding, structural molecule activity, transporter activity;P:intracellular protein transport, vesicle-mediated transport, ER to Golgi vesicle-mediated transport;C:COPI vesicle coat, CUL4 RING ubiquitin ligase complex, membrane;MFOBPAO.I.H.G.S.X.
0.3439.80.92At3g05420819707ACBP4 (ACYL-COA BINDING PROTEIN 4)Acyl-CoA binding protein with high affinity for oleoyl-CoA. Expressed in all plant organs. Involved in fatty acid transport.O.I.H.G.S.X.
0.3338.10.94At1g04910839373unknown proteinF:molecular_function unknown;P:biological_process unknown;C:Golgi apparatus;PO.I.H.G.S.X.
0.3338.10.93At1g59610842251ADL3 (ARABIDOPSIS DYNAMIN-LIKE 3)A high molecular weight GTPase whose GTP-binding domain shows a low homology to those of other plant dynamin-like proteins.Contains a pleckstrin homologous domain.O.I.H.G.S.X.
0.3235.70.92At1g05500837052NTMC2T2.1F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;MPFOO.I.H.G.S.X.
0.3133.80.94At3g51310824294VPS35C (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.
0.2930.30.92At4g24840828587-F:molecular_function unknown;P:protein transport, Golgi organization;C:vacuole;MFOPO.I.H.G.S.X.
0.2930.30.92At2g30100817561ubiquitin family proteinF:protein binding;P:protein modification process;C:chloroplast;MPBOFAVO.I.H.G.S.X.
0.2624.40.92At4g39690830124unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;MOBFPVAO.I.H.G.S.X.
0.2624.40.92At3g62360825409carbohydrate bindingF:carbohydrate binding;P:unknown;C:endoplasmic reticulum, plasma membrane, plant-type cell wall;MBOPAO.I.H.G.S.X.
0.2420.70.93At3g19740821511ATP binding / ATPase/ nucleoside-triphosphatase/ nucleotide bindingF:nucleoside-triphosphatase activity, ATPase activity, nucleotide binding, ATP binding;P:biological_process unknown;C:mitochondrion;BOMFPAVO.I.H.G.S.X.
0.2217.50.93At1g47550841164unknown proteinF:unknown;P:biological_process unknown;C:plasma membrane, exocyst;MFPOBAO.I.H.G.S.X.
0.2014.40.93At5g46210834663CUL4 (CULLIN4)Arabidopsis CULLIN4 (CUL4) forms an E3 ubiquitin ligase with the CDD complex and a common catalytic subunit RBX1 in mediating light control of development. This CUL4-based E3 ligase is essential for the repression of photomorphogenesis. The partial loss of CUL4 function resulted in a constitutive photomorphogenic phenotype with respect to morphogenesis and light-regulated gene expression. CUL4 exhibits a synergistic genetic interaction with COP10 and DET1.O.I.H.G.S.X.
0.2014.40.92At5g11490831021adaptin family proteinF:protein transporter activity, protein binding, binding;P:intracellular protein transport, vesicle-mediated transport, protein transport;C:membrane coat, clathrin adaptor complex;MFOPO.I.H.G.S.X.
0.157.80.92At2g28390817387SAND family proteinF:unknown;P:unknown;C:chloroplast;MFOBPAVO.I.H.G.S.X.
0.157.80.93At1g54610841903protein 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.
0.135.80.92At4g30480829171tetratricopeptide repeat (TPR)-containing proteinF:binding;P:unknown;C:cellular_component unknown;MOPFBAVO.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
55.999.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
55.299.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
54.499.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.399.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.899.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.199.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.999.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.399.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
45.999.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
45.699.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.499.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.199.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.899.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.299.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.999.8GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
41.799.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.699.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.199.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.699.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.899.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.699.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
28.899.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.099.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
21.299.6GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
16.799.5GSM270814Arabidopsis cell culture, 4 h_control_rep1GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
15.299.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.199.4GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.499.4E-MEXP-1474-raw-cel-1593932929
14.199.4E-MEXP-1474-raw-cel-1593932865
12.199.3E-MEXP-1474-raw-cel-1593932801
9.899.1GSM205435Col_ leaf_ wildtype_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
0.1112GO:0007030A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the Golgi apparatus.Link to AmiGO
0.0651GO:0000209Addition of multiple ubiquitin moieties to a protein, forming a ubiquitin chain.Link to AmiGO
0.0651GO:0045053The retention of proteins within the Golgi apparatus. Golgi-localized carbohydrate-modifying enzymes have a short N-terminal domain that faces the cytosol, a single transmembrane alpha helix, and a large C-terminal domain that faces the Golgi lumen and that contains the catalytic site. How the membrane-spanning alpha helix in a Golgi enzyme causes its localization and prevents its movement to the plasma membrane is not known.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.063200052Galactose metabolismLink to KEGG PATHWAY
0.025103420Nucleotide excision repairLink to KEGG PATHWAY
0.020100520Amino sugar and nucleotide sugar 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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