Co-expression analysis

Gene ID At3g13960
Gene name AtGRF5 (GROWTH-REGULATING FACTOR 5)
Module size 5 genes
NF 0.38
%ile 51.5



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
1.00100.01.00At3g13960820609AtGRF5 (GROWTH-REGULATING FACTOR 5)Growth regulating factor encoding transcription activator. One of the nine members of a GRF gene family, containing nuclear targeting domain. Involved in leaf development and expressed in root, shoot and flower.O.I.H.G.S.X.
0.6075.70.81At1g55200841963protein kinase family proteinF:protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;MPOBFVAO.I.H.G.S.X.
0.6075.70.83At5g28640832968AN3 (ANGUSTIFOLIA 3)Encodes a protein with similarity to mammalian transcriptional coactivator that is involved in cell proliferation during leaf and flower development. Loss of function mutations have narrow, pointed leaves and narrow floral organs. AN3 interacts with members of the growth regulating factor (GRF) family of transcription factors.O.I.H.G.S.X.
0.3846.70.80At4g28950829016ROP9 (RHO-RELATED PROTEIN FROM PLANTS 9)A member of ROP GTPase gene family.O.I.H.G.S.X.
0.157.80.78At2g45190819127AFO (ABNORMAL FLORAL ORGANS)Encodes a member of the YABBY family of transcriptional regulators that is involved in abaxial cell type specification in leaves and fruits. YAB1 acts in a non-cell autonomous fashion within the meristem to affect phyllotactic patterning. The non-autonomous effect on the central region of the meristem is mediated through the activity if Lateral Suppressor (LAS).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
376.6100.0GSM311278Laser capture microdissected (LCM) peripheral endosperm at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
325.8100.0GSM311277Laser capture microdissected (LCM) peripheral endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
134.499.9GSM284391Arabidopsis GPE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
58.799.8GSM311285Laser capture microdissected (LCM) whole seed sections at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
55.799.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
45.399.8GSM284390Arabidopsis GPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
40.499.8E-MEXP-98-raw-cel-320188969
37.899.8GSM142750MJ001_ATH1_A1-jones-WT1GSE6165The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.Link to GEO
37.299.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.599.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.299.7GSM142751MJ001_ATH1_A2-jones-WT2GSE6165The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.Link to GEO
31.299.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.299.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.999.7GSM311286Laser capture microdissected (LCM) whole seed sections at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
28.799.7E-MEXP-1304-raw-cel-1530618068
26.199.7E-MEXP-1304-raw-cel-1530617900
26.199.7GSM184837Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 7GSE7639Expression analysis of root developmental zones after treatment with saltLink to GEO
25.799.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.699.7E-MEXP-722-raw-cel-1062243516
24.399.6E-MEXP-98-raw-cel-320188914
24.299.6E-MEXP-1304-raw-cel-1530617971
23.799.6GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.599.6E-MEXP-1304-raw-cel-1530618003
21.499.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
20.999.6GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.799.6E-MEXP-1725-raw-cel-1669614623
20.499.6GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.799.6GSM142754MJ001_ATH1_A5-jones-WT-Rep3GSE6165The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.Link to GEO
19.699.6GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.499.6GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.199.6E-MEXP-1304-raw-cel-1530618203
19.099.5GSM133803Werner_1-4_mutant-24hr-control(j4s)_Rep1_ATH1GSE5734Effect of mycotoxin treatment on gene expression of wild-type and an altered sensitivity mutantLink to GEO
19.099.5GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.899.5E-MEXP-1725-raw-cel-1669614634
18.799.5GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.699.5E-MEXP-722-raw-cel-1062243470
17.899.5E-MEXP-1725-raw-cel-1669614582
17.899.5E-MEXP-1725-raw-cel-1669614562
17.799.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
16.499.5GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
16.099.5E-MEXP-1304-raw-cel-1530618104
15.699.5GSM311279Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
15.699.5GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
15.099.4GSM133257RIKEN-GODA13A-6GSE5696AtGenExpress: Effect of brassinosteroids in seedlingsLink to GEO
14.899.4GSM184838Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 8GSE7639Expression analysis of root developmental zones after treatment with saltLink to GEO
14.799.4GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.699.4E-MEXP-722-raw-cel-1062243559
12.699.3GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
12.099.3GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.799.3E-ATMX-19-raw-cel-1375547479
11.699.3GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.899.2GSM133268RIKEN-GODA5B-6GSE5696AtGenExpress: Effect of brassinosteroids in seedlingsLink to GEO
10.699.2GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.499.2GSM133264RIKEN-GODA3B-6GSE5696AtGenExpress: Effect of brassinosteroids in seedlingsLink to GEO
10.499.2GSM311295Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
10.299.2E-MEXP-1304-raw-cel-1530617935
10.199.2GSM131448AtGen_6-9212_Heatstress-Shoots-1.0h_Rep2GSE5628AtGenExpress: Stress Treatments (Heat stress)Link to GEO
10.099.2E-MEXP-722-raw-cel-1062243429
9.999.1GSM133276RIKEN-GODA9B-6GSE5696AtGenExpress: Effect of brassinosteroids in seedlingsLink to GEO
9.899.1GSM133269RIKEN-GODA6A-6GSE5696AtGenExpress: Effect of brassinosteroids in seedlingsLink to GEO
9.699.1GSM133262RIKEN-GODA2B-6GSE5696AtGenExpress: Effect of brassinosteroids in seedlingsLink to GEO
9.499.1GSM131447AtGen_6-9211_Heatstress-Shoots-1.0h_Rep1GSE5628AtGenExpress: Stress Treatments (Heat stress)Link to GEO
9.499.1GSM133267RIKEN-GODA5A-6GSE5696AtGenExpress: Effect of brassinosteroids in seedlingsLink to GEO
9.399.1GSM133258RIKEN-GODA13B-6GSE5696AtGenExpress: Effect of brassinosteroids in seedlingsLink to GEO
9.299.1GSM133252RIKEN-GODA10B-6GSE5696AtGenExpress: Effect of brassinosteroids in seedlingsLink to GEO
9.299.1E-MEXP-1304-raw-cel-1530618171
9.199.1GSM131449AtGen_6-9221_Heatstress-Roots-1.0h_Rep1GSE5628AtGenExpress: Stress Treatments (Heat stress)Link to GEO
9.099.1GSM133802Werner_1-3_mutant-2hr-control(j2s)_Rep1_ATH1GSE5734Effect of mycotoxin treatment on gene expression of wild-type and an altered sensitivity mutantLink to GEO
8.899.0GSM176880AWP_Control_2GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.3331GO:0010159The regionalization process by which information that determines the correct position at which organ primordia are formed is generated and perceived resulting in correct positioning of the new organ.Link to AmiGO
0.2221GO:0045165The commitment of cells to specific cell fates and their capacity to differentiate into particular kinds of cells. Positional information is established through protein signals that emanate from a localized source within a cell (the initial one-cell zygote) or within a developmental field.Link to AmiGO
0.1671GO:0010158Process by which a cell becomes capable of differentiating autonomously into an abaxial cell in an environment that is neutral with respect to the developmental pathway; upon specification, the cell fate can be reversed.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG

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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