Co-expression analysis

Gene ID At3g59340
Gene name unknown protein
Module size 22 genes
NF 0.60
%ile 81.6



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
0.4558.31.00At3g59340825103unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;OMBFPAO.I.H.G.S.X.
0.7385.50.65At5g06630830551proline-rich extensin-like family proteinF:structural constituent of cell wall;P:plant-type cell wall organization;C:endomembrane system;MFPOBVAO.I.H.G.S.X.
0.7184.20.63At5g19800832100hydroxyproline-rich glycoprotein family proteinF:unknown;P:biological_process unknown;C:endomembrane system;MPOFBVAO.I.H.G.S.X.
0.7184.20.65At4g25220828625transporter, putativeF:transporter activity;P:transport;C:unknown;BOFMAPO.I.H.G.S.X.
0.7083.50.64At2g25240817062serine-type endopeptidase inhibitorF:serine-type endopeptidase inhibitor activity;P:biological_process unknown;C:cellular_component unknown;MVBPOAFO.I.H.G.S.X.
0.6982.90.66At3g54590824624ATHRGP1 (HYDROXYPROLINE-RICH GLYCOPROTEIN)Encodes a hydroxyproline-rich glycoprotein.O.I.H.G.S.X.
0.6982.90.64At5g19790832099RAP2.11 (related to AP2 11)encodes a member of the ERF (ethylene response factor) subfamily B-6 of ERF/AP2 transcription factor family (RAP2.11). The protein contains one AP2 domain. There are 12 members in this subfamily including RAP2.11.O.I.H.G.S.X.
0.6882.20.65At2g24980817037proline-rich extensin-like family proteinF:structural constituent of cell wall;P:plant-type cell wall organization;C:endomembrane system;MFPOBVAO.I.H.G.S.X.
0.6882.20.63At5g06640830552proline-rich extensin-like family proteinF:structural constituent of cell wall;P:plant-type cell wall organization;C:unknown;MFPOBVAO.I.H.G.S.X.
0.6579.60.68At3g60280825199UCC3 (UCLACYANIN 3)Encodes blue copper-binding protein III.O.I.H.G.S.X.
0.6176.70.67At1g23720838982proline-rich extensin-like family proteinF:structural constituent of cell wall;P:plant-type cell wall organization;C:unknown;MBFOPVAO.I.H.G.S.X.
0.6176.70.62At5g35190833473proline-rich extensin-like family proteinF:structural constituent of cell wall;P:plant-type cell wall organization;C:endomembrane system;MFPOBVAO.I.H.G.S.X.
0.6176.70.65At3g62680825442PRP3 (PROLINE-RICH PROTEIN 3)Proline-rich proteinO.I.H.G.S.X.
0.6075.70.64At4g40090830172AGP3 (arabinogalactan-protein 3)F:unknown;P:multicellular organismal development;C:endomembrane system;PO.I.H.G.S.X.
0.6075.70.64At5g22410832302peroxidase, putativeF:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOO.I.H.G.S.X.
0.6075.70.68At5g61650836287CYCP4The P-type cyclins (CYCPs) share a conserved central region of 100 amino acids ('cyclin box') displaying homology to the corresponding region of the PHO80 cyclin from Saccharomyces cerevisiae and the related G1 cyclins from Trypanosoma cruzi and T. brucei.O.I.H.G.S.X.
0.5974.70.65At4g26010828707peroxidase, putativeF:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOO.I.H.G.S.X.
0.5873.80.63At4g25820828687XTR9 (XYLOGLUCAN ENDOTRANSGLYCOSYLASE 9)Encodes a xyloglucan endotransglycosylase with a clear preference for non-fucosylated xyloglucan polymer.O.I.H.G.S.X.
0.5469.50.65At5g05500830433pollen Ole e 1 allergen and extensin family proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.5065.30.63At4g33730829515pathogenesis-related protein, putativeF:molecular_function unknown;P:biological_process unknown;C:endomembrane system, extracellular region;MPFOBO.I.H.G.S.X.
0.4963.50.62At3g01730821089unknown proteinF:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;PO.I.H.G.S.X.
0.4963.50.63At2g03720814899MRH6 (morphogenesis of root hair 6)Involved in root hair developmentO.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
118.799.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
102.899.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
88.199.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
82.299.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
60.999.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
56.899.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
53.399.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
49.699.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
49.499.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.999.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.599.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.399.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.199.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.499.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.099.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.899.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.899.8GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
39.599.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.499.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.199.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.099.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.299.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.799.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.399.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
29.599.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.299.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
28.299.7GSM133119RIKEN-YAMAUCHI2AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
24.899.6GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
22.199.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.599.5GSM266671Arabidopsis, root cells, cortex, -Fe, replicate 3GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
16.799.5GSM184895Arabidopsis, root cells, cortex, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
16.699.5GSM184896Arabidopsis, root cells, cortex, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
15.999.5GSM131305AtGen_6-2621_Osmoticstress-Roots-24.0h_Rep1GSE5622AtGenExpress: Stress Treatments (Osmotic stress)Link to GEO
15.599.5GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.899.4GSM226541L11SBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
13.399.4GSM266670Arabidopsis, root cells, cortex, -Fe, replicate 2GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
12.999.3GSM131326AtGen_6-3522_Saltstress-Roots-12.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
12.099.3GSM142734DH001_ATH1_A1-UNM1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
11.699.3GSM266669Arabidopsis, root cells, cortex, -Fe, replicate 1GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
11.699.3E-ATMX-1-raw-cel-1112746154
11.399.3GSM184897Arabidopsis, root cells, cortex, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
11.299.2GSM142737DH001_ATH1_A4-UNM2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
11.199.2GSM131322AtGen_6-3422_Saltstress-Roots-6.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
10.999.2GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
10.999.2GSM131325AtGen_6-3521_Saltstress-Roots-12.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
10.399.2GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
10.199.2E-MEXP-849-raw-cel-1181980998
9.999.1GSM131698ATGE_81_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.899.1GSM131697ATGE_81_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.799.1GSM131302AtGen_6-2522_Osmoticstress-Roots-12.0h_Rep2GSE5622AtGenExpress: Stress Treatments (Osmotic stress)Link to GEO
9.799.1GSM131699ATGE_81_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
8.799.0GSM133137S1500_2H_AGSE5688AtGenExpress: Response to sulfate limitationLink to GEO
8.699.0GSM133120RIKEN-YAMAUCHI2BGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
8.699.0E-MEXP-828-raw-cel-1156922634

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2456GO:0009664A process that results in the assembly and arrangement of constituent parts of the cellulose and pectin-containing cell wall, or in the disassembly of the cellulose and pectin-containing cell wall. This process is carried out at the cellular level. An example of this process is found in Arabidopsis thaliana.Link to AmiGO
0.0801GO:0010054The process whereby a relatively unspecialized cell acquires the specialized features of a trichoblast, a root epidermal cell that will give rise to a root hair.Link to AmiGO
0.0611GO:0048765The process whereby a relatively unspecialized cell acquires specialized features of a root hair cell.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.039200360Phenylalanine metabolismLink to KEGG PATHWAY
0.039200680Methane metabolismLink to KEGG PATHWAY
0.032200940Phenylpropanoid biosynthesisLink 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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