Co-expression analysis

Gene ID At4g38680
Gene name GRP2 (GLYCINE RICH PROTEIN 2)
Module size 20 genes
NF 0.34
%ile 45.2



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
0.3846.71.00At4g38680830024GRP2 (GLYCINE RICH PROTEIN 2)Encodes a glycine-rich protein that binds nucleic acids and promotes DNA melting. Its transcript and protein levels are up-regulated in response to cold treatment with protein levels peaking earlier in shoots (~10-14 days) than in roots (~21 days). It is normally expressed in meristematic regions and developing tissues where cell division occurs. RNAi and antisense lines with lower levels of CSP2/GRP2 transcripts flower earlier than wild type plants and have some defects in anther and seed development.O.I.H.G.S.X.
0.6378.10.84At4g38660830022thaumatin, putativeF:molecular_function unknown;P:response to other organism;C:anchored to membrane;PFMBOVO.I.H.G.S.X.
0.5570.60.84At3g17840821053RLK902Encodes a receptor-like kinase found at the cell surface of various tissues. Its function remains unknown.O.I.H.G.S.X.
0.5267.40.84At1g68400843169leucine-rich repeat transmembrane protein kinase, putativeF:protein serine/threonine kinase activity, kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:endomembrane system;PMOBFVAO.I.H.G.S.X.
0.4761.20.83At3g56370824804leucine-rich repeat transmembrane protein kinase, putativeF:protein serine/threonine kinase activity, kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:endomembrane system;MPOBFVAO.I.H.G.S.X.
0.4457.20.83At5g51560835230leucine-rich repeat transmembrane protein kinase, putativeF:protein binding, protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:endomembrane system;PMOBFVAO.I.H.G.S.X.
0.4253.90.85At1g77630844098peptidoglycan-binding LysM domain-containing proteinF:unknown;P:cell wall macromolecule catabolic process;C:anchored to plasma membrane, plasma membrane, anchored to membrane;PBOMFO.I.H.G.S.X.
0.3846.70.84At3g25980822195mitotic spindle checkpoint protein, putative (MAD2)F:DNA binding;P:mitosis, mitotic cell cycle spindle assembly checkpoint;C:endomembrane system;MFOPO.I.H.G.S.X.
0.3846.70.82At3g14240820644subtilase family proteinF:identical protein binding, serine-type endopeptidase activity;P:proteolysis, negative regulation of catalytic activity;C:endomembrane system;BPOFAMO.I.H.G.S.X.
0.3846.70.83At2g05790815130glycosyl hydrolase family 17 proteinF:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;PFOO.I.H.G.S.X.
0.3439.80.86At5g61130836234PDCB1 (PLASMODESMATA CALLOSE-BINDING PROTEIN 1)Encodes a plasmodesmatal localized protein with callose binding activity. The function of PDCB1 is unknown but overexpression leads to the hyperaccumulation of callose.O.I.H.G.S.X.
0.3439.80.82At3g02640821289unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;POO.I.H.G.S.X.
0.3032.10.82At1g76310843964CYCB2core cell cycle genesO.I.H.G.S.X.
0.3032.10.85At5g62710836392leucine-rich repeat family protein / protein kinase family proteinF:protein binding, protein serine/threonine kinase activity, protein kinase activity, ATP binding;P:protein amino acid phosphorylation;C:endomembrane system;PMOBFVAO.I.H.G.S.X.
0.2930.30.85At3g61610825334aldose 1-epimerase family proteinF:carbohydrate binding, isomerase activity, aldose 1-epimerase activity, catalytic activity;P:galactose metabolic process, N-terminal protein myristoylation, carbohydrate metabolic process;C:cellular_component unknown;BOPFMO.I.H.G.S.X.
0.2930.30.83At3g01410821319RNase H domain-containing proteinF:ribonuclease H activity, nuclease activity, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;POBAMO.I.H.G.S.X.
0.2522.60.84At1g02690839517IMPA-6 (IMPORTIN ALPHA ISOFORM 6)Putative importin alpha isoform. When overexpressed can rescue the impa-4 decreased transformation susceptibility phenotype.O.I.H.G.S.X.
0.2319.30.83At1g04520839502PDLP2 (PLASMODESMATA-LOCATED PROTEIN 2)F:molecular_function unknown;P:N-terminal protein myristoylation, plasmodesmata-mediated intercellular transport;C:plasmodesma;PBFMOO.I.H.G.S.X.
0.146.80.82At2g36400818213AtGRF3 (GROWTH-REGULATING FACTOR 3)Growth regulating factor encoding transcription activator. One of the nine members of a GRF gene family, containing nuclear targeting domain. Mutants result in smaller leaves indicating the role of the gene in leaf development. Expressed in root, shoot and flower.O.I.H.G.S.X.
0.135.80.83At1g07370837249PCNA1 (PROLIFERATING CELLULAR NUCLEAR ANTIGEN)Encodes putative proliferating cell nuclear antigen involved in cell cycle regulation.O.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
72.499.9GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
69.099.9GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
64.099.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
62.499.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
61.299.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
59.299.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.799.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
49.599.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.799.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.599.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.299.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.399.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.699.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.599.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.699.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
31.499.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
31.299.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.199.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.899.7GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
30.699.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.099.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
27.799.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.299.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.299.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
25.899.7E-MEXP-807-raw-cel-1173273223
22.199.6E-MEXP-807-raw-cel-1173273252
21.299.6E-MEXP-807-raw-cel-1173273144
20.999.6GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.199.6E-MEXP-807-raw-cel-1173273060
18.699.5E-MEXP-807-raw-cel-1173273170
17.999.5E-MEXP-807-raw-cel-1173273116
16.399.5GSM131608ATGE_42_DGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
16.299.5E-MEXP-807-raw-cel-1173272948
15.499.5GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
14.599.4GSM131606ATGE_42_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
14.399.4GSM131607ATGE_42_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
13.799.4GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.799.4GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
13.699.4E-MEXP-807-raw-cel-1173273196
11.999.3GSM13783Dexamethasone plus cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
11.299.2E-MEXP-807-raw-cel-1173273088
10.599.2E-MEXP-1344-raw-cel-1559561563
9.199.1GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.099.1GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
8.799.0GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
8.699.0GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0911GO:0006275Any process that modulates the frequency, rate or extent of DNA replication.Link to AmiGO
0.0911GO:0052543Any process by which callose is transported to, and/or maintained in, the cell wall. Callose is a linear 1,3-beta-d-glucan formed from UDP-glucose and is found in certain plant cell walls.Link to AmiGO
0.0831GO:0007094A signal transduction based surveillance mechanism that ensures the fidelity of cell division by preventing the premature advance of cells from metaphase to anaphase prior to the successful attachment of kinetochores to spindle microtubules (spindle assembly).Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.043103430Mismatch repairLink to KEGG PATHWAY
0.035103030DNA replicationLink to KEGG PATHWAY
0.034103410Base excision repairLink 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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