Co-expression analysis

Gene ID At5g06260
Gene name nucleolar protein-related
Module size 11 genes
NF 0.44
%ile 62.2



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
0.3439.81.00At5g06260830513nucleolar protein-relatedF:calcium ion binding;P:N-terminal protein myristoylation;C:cellular_component unknown;MOPFO.I.H.G.S.X.
0.7888.60.94At1g22620838868ATSAC1 (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.
0.6075.70.95At1g48790841301mov34 family proteinF:molecular_function unknown;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;MFPOO.I.H.G.S.X.
0.5570.60.93At5g05700830454ATE1 (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.
0.5469.50.94At3g54860824651vacuolar protein sorting protein, putativeHomologous to yeast VPS33. Forms a complex with VCL1 and AtVPS11. Involved in vacuolar biogenesis.O.I.H.G.S.X.
0.4253.90.95At3g19420821476ATPEN2 (ARABIDOPSIS THALIANA PTEN 2)F:phosphatase activity, protein tyrosine phosphatase activity;P:dephosphorylation;C:unknown;OMFBPVO.I.H.G.S.X.
0.4152.40.93At4g36630829815EMB2754 (EMBRYO DEFECTIVE 2754)F:small GTPase regulator activity, binding;P:embryonic development ending in seed dormancy;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.3745.00.93At5g41940834199RabGAP/TBC domain-containing proteinF:RAB GTPase activator activity;P:regulation of Rab GTPase activity;C:intracellular;MOFPBVAO.I.H.G.S.X.
0.3235.70.93At1g69340843266appr-1-p processing enzyme family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BMOPFAVO.I.H.G.S.X.
0.3032.10.94At3g59950825165autophagy 4b (APG4b)F:peptidase activity;P:autophagy;C:chloroplast;MOFPO.I.H.G.S.X.
0.2930.30.93At2g38020818380VCL1 (VACUOLELESS 1)necessary for proper vacuole formation and morphogenesis in ArabidopsisO.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
60.799.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
59.299.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
54.199.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
53.799.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
52.099.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.999.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
49.599.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.099.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
48.299.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
45.499.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.299.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.599.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.599.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.499.8E-MEXP-1474-raw-cel-1593932801
41.099.8E-MEXP-807-raw-cel-1173273170
40.499.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.499.8E-MEXP-828-raw-cel-1156922944
40.099.8GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
38.999.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.499.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.899.7E-MEXP-1474-raw-cel-1593932865
30.199.7E-MEXP-1474-raw-cel-1593932929
28.999.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
28.899.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.699.7E-MEXP-828-raw-cel-1156922684
27.799.7E-MEXP-1138-raw-cel-1432772714
27.799.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
27.099.7E-MEXP-807-raw-cel-1173273223
26.799.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.899.7E-MEXP-807-raw-cel-1173272948
25.499.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
25.199.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.199.6E-MEXP-807-raw-cel-1173273252
22.999.6GSM39200Col_C2GSE2169rre1 and rre2 mutantsLink to GEO
22.199.6E-MEXP-1138-raw-cel-1432772522
22.099.6E-MEXP-828-raw-cel-1156922846
20.499.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
19.499.6E-MEXP-807-raw-cel-1173273116
18.899.5GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
18.099.5E-MEXP-807-raw-cel-1173273060
17.699.5GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.499.5GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.399.5E-MEXP-1138-raw-cel-1432772746
17.299.5E-MEXP-828-raw-cel-1156922923
17.199.5E-MEXP-1138-raw-cel-1432773354
16.399.5E-MEXP-1138-raw-cel-1432772874
16.299.5GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
15.899.5E-MEXP-1138-raw-cel-1432773322
15.599.5E-MEXP-1138-raw-cel-1432772682
15.299.4E-MEXP-1138-raw-cel-1432772938
15.099.4E-MEXP-1138-raw-cel-1432772650
13.999.4E-MEXP-1138-raw-cel-1432772778
13.899.4GSM142851MG001_ATH1_A4-Torres-2N1GSE6176Impact of Type III effectors on plant defense responsesLink to GEO
13.699.4E-MEXP-1138-raw-cel-1432773258
13.699.4GSM131636ATGE_73_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
13.499.4E-MEXP-1138-raw-cel-1432772810
12.999.3E-MEXP-1138-raw-cel-1432772586
12.799.3E-MEXP-807-raw-cel-1173273196
12.599.3E-MEXP-1138-raw-cel-1432772554
12.499.3E-MEXP-1138-raw-cel-1432772906
12.499.3GSM131322AtGen_6-3422_Saltstress-Roots-6.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
12.399.3GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
11.899.3GSM154504Arabidopsis desiccated mature pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
11.899.3E-MEXP-1138-raw-cel-1432773162
11.799.3E-MEXP-807-raw-cel-1173273144
11.599.3E-MEXP-1138-raw-cel-1432773226
11.599.3E-MEXP-828-raw-cel-1156922772
11.599.3E-MEXP-1138-raw-cel-1432773386
11.299.2E-MEXP-828-raw-cel-1156922708
10.999.2GSM131321AtGen_6-3421_Saltstress-Roots-6.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
10.899.2E-MEXP-1138-raw-cel-1432772618
10.499.2GSM239251Columbia glabrous (C24) wild type pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
9.999.1E-MEXP-828-raw-cel-1156922829
9.999.1E-MEXP-828-raw-cel-1156922905
9.999.1E-MEXP-807-raw-cel-1173273088
9.799.1GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.599.1E-MEXP-828-raw-cel-1156922416
9.499.1E-MEXP-1138-raw-cel-1432773290
9.399.1E-MEXP-1138-raw-cel-1432772842
9.399.1GSM154506Arabidopsis hydrated pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
8.699.0E-MEXP-1138-raw-cel-1432773194
8.699.0GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
8.699.0GSM13779Dexamethasone plus cycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2112GO: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
0.1541GO: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
0.1431GO:0050994Any process that modulates the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of lipids.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.042100562Inositol phosphate metabolismLink to KEGG PATHWAY
0.042104070Phosphatidylinositol signaling systemLink to KEGG PATHWAY
0.026104144EndocytosisLink 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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