Co-expression analysis

Gene ID At3g47000
Gene name glycosyl hydrolase family 3 protein
Module size 9 genes
NF 0.40
%ile 56.3



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
0.5773.81.00At3g47000823853glycosyl hydrolase family 3 proteinF:hydrolase activity, hydrolyzing O-glycosyl compounds;P:carbohydrate metabolic process;C:cellular_component unknown;BOFPAMO.I.H.G.S.X.
0.6781.60.93At1g22620838868ATSAC1 (suppressor of actin 1)SAC domain phosphoinositide (3,5)P2 phosphatase. Colocalized with a Golgi Marker. Required for normal cell morphogenesis, cell wall synthesis, and actin organization.O.I.H.G.S.X.
0.4761.20.93At3g54860824651vacuolar protein sorting protein, putativeHomologous to yeast VPS33. Forms a complex with VCL1 and AtVPS11. Involved in vacuolar biogenesis.O.I.H.G.S.X.
0.4457.20.93At1g48790841301mov34 family proteinF:molecular_function unknown;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;MFPOO.I.H.G.S.X.
0.3846.70.93At5g05700830454ATE1 (ARGININE-TRNA PROTEIN TRANSFERASE 1)Encodes an arginyl-tRNA:protein transferase (ATE1), a component of the N-end rule pathway that targets protein degradation through the identity of the amino-terminal residue of specific protein substrates. Arabidopsis contains two ATE genes: At5g05700/ATE1, At3g11240/ATE2. Another component of the N-end rule pathway is At5g02310/PROTEOLYSIS6 (PRT6). PRT6 and ATE were shown to regulate seed after-ripening, seedling sugar sensitivity, seedling lipid breakdown, and abscisic acid (ABA) sensitivity of germination. Mutants of ATE1 also display delayed leaf senescence.O.I.H.G.S.X.
0.3643.60.92At5g06260830513nucleolar protein-relatedF:calcium ion binding;P:N-terminal protein myristoylation;C:cellular_component unknown;MOPFO.I.H.G.S.X.
0.3338.10.92At3g19420821476ATPEN2 (ARABIDOPSIS THALIANA PTEN 2)F:phosphatase activity, protein tyrosine phosphatase activity;P:dephosphorylation;C:unknown;OMFBPVO.I.H.G.S.X.
0.2930.30.94At3g03380821268DegP7 (DegP protease 7)Encodes a putative DegP protease.O.I.H.G.S.X.
0.2014.40.93At1g70570843394anthranilate phosphoribosyltransferase, putativeF:anthranilate phosphoribosyltransferase activity, transferase activity, transferring glycosyl groups;P:tryptophan biosynthetic process, metabolic process;C:chloroplast;BOAPO.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
115.299.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
91.699.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
83.599.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
55.599.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
52.399.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
50.299.8E-MEXP-1474-raw-cel-1593932801
49.999.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.099.8E-MEXP-828-raw-cel-1156922944
48.299.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.199.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.699.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
46.699.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.799.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
45.399.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.699.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
44.199.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.799.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.199.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.999.8GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
41.499.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.999.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.499.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.799.8GSM184917Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
38.699.8E-MEXP-1474-raw-cel-1593932865
36.999.7GSM184900Arabidopsis, root cells, endodermis and quiescent center, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
36.599.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.499.7E-MEXP-1474-raw-cel-1593932929
36.299.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.599.7E-MEXP-828-raw-cel-1156922684
32.799.7E-MEXP-1138-raw-cel-1432772714
28.799.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
28.499.7GSM184898Arabidopsis, root cells, endodermis and quiescent center, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
27.499.7GSM39200Col_C2GSE2169rre1 and rre2 mutantsLink to GEO
26.899.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.699.7E-MEXP-828-raw-cel-1156922846
26.099.7E-MEXP-1138-raw-cel-1432772522
26.099.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.699.6GSM266673Arabidopsis, root cells, endodermis and quiescent center, -Fe, replicate 2GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
22.099.6GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
21.299.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.599.6E-MEXP-828-raw-cel-1156922923
20.299.6E-MEXP-1138-raw-cel-1432772746
19.799.6GSM184899Arabidopsis, root cells, endodermis and quiescent center, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
19.499.6GSM133993Birnbaum_1-26_J0571-2_Rep2_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
19.199.6E-MEXP-1138-raw-cel-1432772874
18.899.5GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
18.399.5E-MEXP-1138-raw-cel-1432773354
17.399.5E-MEXP-1138-raw-cel-1432772938
17.399.5GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
16.999.5E-MEXP-1138-raw-cel-1432772650
16.699.5E-MEXP-1138-raw-cel-1432772682
16.199.5E-MEXP-1138-raw-cel-1432772778
15.599.5GSM266674Arabidopsis, root cells, endodermis and quiescent center, -Fe, replicate 3GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
15.299.4E-MEXP-1138-raw-cel-1432772810
14.999.4GSM131636ATGE_73_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
14.899.4E-MEXP-1138-raw-cel-1432772586
14.699.4GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.299.4E-MEXP-1138-raw-cel-1432772554
14.199.4E-MEXP-1138-raw-cel-1432772906
14.199.4E-MEXP-1138-raw-cel-1432773322
13.999.4GSM154504Arabidopsis desiccated mature pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
13.999.4GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
13.899.4E-MEXP-828-raw-cel-1156922772
13.599.4GSM133971Birnbaum_1-1_src5-1_Rep1_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
13.399.4GSM184918Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
13.199.4E-MEXP-828-raw-cel-1156922708
13.099.4E-MEXP-1138-raw-cel-1432773162
13.099.4GSM184916Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
13.099.4E-MEXP-1138-raw-cel-1432773226
12.499.3E-MEXP-1138-raw-cel-1432773386
12.299.3GSM131608ATGE_42_DGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
12.199.3E-MEXP-1138-raw-cel-1432773258
12.099.3E-MEXP-1138-raw-cel-1432772618
11.699.3GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.499.3E-MEXP-828-raw-cel-1156922829
11.399.3GSM131537ATGE_25_AGSE5630AtGenExpress: Developmental series (leaves)Link to GEO
11.299.2E-MEXP-828-raw-cel-1156922416
11.199.2E-MEXP-828-raw-cel-1156922905
10.799.2GSM154506Arabidopsis hydrated pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
10.799.2GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
10.599.2GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
10.499.2GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.499.2GSM133973Birnbaum_1-3_src5-3_Rep3_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
10.399.2E-MEXP-1138-raw-cel-1432772842
10.299.2GSM239251Columbia glabrous (C24) wild type pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
10.199.2GSM265425Arabidopsis, root, longitudinal zone 4, standard conditions, rep 2GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
9.799.1GSM131539ATGE_25_CGSE5630AtGenExpress: Developmental series (leaves)Link to GEO
9.299.1E-MEXP-1138-raw-cel-1432773194
8.999.0GSM265431Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 2GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
8.999.0E-MEXP-682-raw-cel-922397560
8.899.0GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
8.899.0GSM131607ATGE_42_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
8.799.0GSM131538ATGE_25_BGSE5630AtGenExpress: Developmental series (leaves)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1821GO:0016598The posttranslational conjugation of arginine to the N-terminal aspartate or glutamate of a protein; required for the degradation of the protein via the ubiquitin pathway.Link to AmiGO
0.1671GO:0050994Any process that modulates the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of lipids.Link to AmiGO
0.1181GO:0007033A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a vacuole.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.063100460Cyanoamino acid metabolismLink to KEGG PATHWAY
0.043100562Inositol phosphate metabolismLink to KEGG PATHWAY
0.043104070Phosphatidylinositol signaling systemLink 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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