Co-expression analysis

Gene ID At4g22740
Gene name glycine-rich protein
Module size 15 genes
NF 0.26
%ile 29.7



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
0.7083.51.00At4g22740828370glycine-rich proteinF:molecular_function unknown;P:unknown;C:plasma membrane;MPBOFVAO.I.H.G.S.X.
0.4457.20.89At5g55310835624TOP1BETA (DNA TOPOISOMERASE 1 BETA)Encodes one of two Arabidopsis type-I DNA topoisomerase I genes. Reducing the level of expression of this gene in a top1alpha (At5g55300) mutant background causes seedling lethality.O.I.H.G.S.X.
0.3439.80.92At3g09850820143D111/G-patch domain-containing proteinF:nucleic acid binding;P:biological_process unknown;C:intracellular, chloroplast;MBOFPAVO.I.H.G.S.X.
0.2930.30.90At4g24470828549TIFY1ZIM is a putative transcription factor containing an atypical GATA-type zinc-finger motif.O.I.H.G.S.X.
0.2522.60.90At3g06240819798F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.2420.70.88At2g27350817278OTU-like cysteine protease family proteinF:cysteine-type peptidase activity;P:biological_process unknown;C:chloroplast;OMPFBVO.I.H.G.S.X.
0.2420.70.89At3g05520819717F-actin capping protein alpha subunit family proteinF:actin binding;P:actin cytoskeleton organization;C:nucleus, F-actin capping protein complex;MFOPO.I.H.G.S.X.
0.2420.70.89At2g32260817786cholinephosphate cytidylyltransferase, putative / phosphorylcholine transferase, putative / CTP:phosphocholine cytidylyltransferase, putativeF:choline-phosphate cytidylyltransferase activity, catalytic activity, nucleotidyltransferase activity;P:biosynthetic process;C:unknown;MOBFPAVO.I.H.G.S.X.
0.2319.30.90At3g15880820831protein bindingF:protein binding;P:primary shoot apical meristem specification;C:endomembrane system;MFBOPAO.I.H.G.S.X.
0.2319.30.88At2g23080816838casein kinase II alpha chain, putativeF:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MOPFBVAO.I.H.G.S.X.
0.2319.30.89At3g12640820444RNA binding / nucleic acid binding / nucleotide bindingF:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MPFBOVO.I.H.G.S.X.
0.2217.50.90At4g16420827336ADA2B (HOMOLOG OF YEAST ADA2 2B)Transcriptional co-activator. Essential for the developmental switch from cell proliferation to cell differentiation in response to variations in auxin and cytokinin concentrations.O.I.H.G.S.X.
0.146.80.90At3g25840822178protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, ATP binding;P:protein amino acid phosphorylation;C:nucleus;MOFPBVAO.I.H.G.S.X.
0.103.40.89At3g20290821573ATEHD1 (EPS15 HOMOLOGY DOMAIN 1)Encodes AtEHD1, one of the Arabidopsis Eps15 homology domain proteins involved in endocytosis (AtEHD2, At4g05520).O.I.H.G.S.X.
0.092.80.90At5g04410830320NAC2NAC family member, hypothetical transcriptional regulatorO.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
135.699.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
128.999.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
102.599.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
91.999.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
80.799.9GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
63.999.8GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
45.799.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
31.999.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.299.7GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
29.899.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.499.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.399.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.299.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.099.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.899.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.299.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.699.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.299.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.199.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.199.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.099.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.099.6GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.399.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.799.6GSM142739DH001_ATH1_A6-TCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
23.099.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
22.999.6GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.799.6GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
22.299.6GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.999.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.699.6GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
19.199.6GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
18.399.5GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
17.799.5GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
16.999.5GSM154505Arabidopsis hydrated pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
16.999.5GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
16.899.5E-MEXP-285-raw-cel-440782725
16.599.5GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
16.299.5GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
16.199.5GSM239251Columbia glabrous (C24) wild type pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
16.099.5GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
15.799.5E-MEXP-509-raw-cel-829148561
15.799.5GSM131636ATGE_73_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
15.099.4GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
14.899.4E-MEXP-285-raw-cel-440782791
14.399.4GSM154507Arabidopsis growing pollen tubes rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
14.299.4GSM154503Arabidopsis desiccated mature pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
14.099.4E-MEXP-1138-raw-cel-1432772938
13.699.4E-MEXP-1138-raw-cel-1432773034
13.499.4GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.999.3GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.999.3GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
12.799.3E-MEXP-1138-raw-cel-1432773098
12.799.3E-ATMX-35-raw-cel-1574334880
12.599.3E-MEXP-1138-raw-cel-1432772874
12.399.3E-MEXP-1138-raw-cel-1432772778
12.399.3GSM131702ATGE_82_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.399.3E-ATMX-35-raw-cel-1574334864
12.399.3GSM154504Arabidopsis desiccated mature pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
12.399.3E-MEXP-1138-raw-cel-1432773066
12.199.3E-MEXP-1138-raw-cel-1432773130
12.199.3E-MEXP-1138-raw-cel-1432772970
12.099.3E-MEXP-1138-raw-cel-1432773354
12.099.3GSM106825opr3_0 hr_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
11.999.3E-MEXP-1138-raw-cel-1432773386
11.899.3E-MEXP-1138-raw-cel-1432773162
11.899.3E-MEXP-1138-raw-cel-1432772586
11.799.3E-MEXP-1138-raw-cel-1432772554
11.699.3E-MEXP-1138-raw-cel-1432773002
11.699.3E-MEXP-1138-raw-cel-1432772906
11.599.3GSM106910opr3_JA_2 hrs_rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
11.599.3GSM154506Arabidopsis hydrated pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
11.399.3E-MEXP-1138-raw-cel-1432772714
11.299.2E-MEXP-1138-raw-cel-1432772810
11.299.2E-MEXP-1138-raw-cel-1432773258
11.299.2E-MEXP-1138-raw-cel-1432773226
11.199.2E-MEXP-1138-raw-cel-1432773290
11.199.2E-MEXP-1138-raw-cel-1432772842
11.099.2GSM131700ATGE_82_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
11.099.2E-MEXP-1138-raw-cel-1432772618
11.099.2E-ATMX-35-raw-cel-1574334848
10.899.2GSM239252Columbia glabrous (C24) wild type stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
10.799.2GSM154508Arabidopsis growing pollen tubes rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
10.699.2GSM106919opr3_OPDA_0.5 hr_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
10.699.2E-MEXP-1138-raw-cel-1432772682
10.699.2GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
10.599.2GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.499.2E-MEXP-1138-raw-cel-1432772522
10.299.2GSM131593ATGE_36_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.299.2GSM106913opr3_JA_8 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.999.1GSM106922opr3_OPDA_2 hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.999.1GSM106923opr3_OPDA_2 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.899.1GSM106907opr3_JA_0.5 hr_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.899.1E-MEXP-1138-raw-cel-1432772650
9.899.1E-MEXP-509-raw-cel-829148632
9.899.1GSM106921opr3_OPDA_0.5 hr_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.599.1GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.599.1GSM106920opr3_OPDA_0.5 hr_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.399.1GSM106912opr3_JA 8hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.099.1GSM239254CaMV::DME stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
8.999.0GSM106924opr3_OPDA_2 hrs_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
8.899.0E-MEXP-1138-raw-cel-1432773322
8.899.0E-MEXP-1138-raw-cel-1432773194
8.799.0GSM131591ATGE_36_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
8.699.0E-MEXP-1138-raw-cel-1432772746

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0911GO:0006897A type of vesicle-mediated transport in which cells take up external materials or membrane constituents by the invagination of small region of the plasma membrane to form a new membrane-bounded vesicle.Link to AmiGO
0.0711GO:0010072The specification of the meristem which will give rise to all post-embryonic above-ground structures of the plant as well as the non-root below-ground structures, such as rhizomes and tubers.Link to AmiGO
0.0711GO:0042127Any process that modulates the frequency, rate or extent of cell proliferation.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.105100440Phosphonate and phosphinate metabolismLink to KEGG PATHWAY
0.045104712Circadian rhythm - plantLink to KEGG PATHWAY
0.044100564Glycerophospholipid 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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