Co-expression analysis

Gene ID At3g22170
Gene name FHY3 (FAR-RED ELONGATED HYPOCOTYLS 3)
Module size 10 genes
NF 0.63
%ile 83.7



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
1.00100.01.00At3g22170821781FHY3 (FAR-RED ELONGATED HYPOCOTYLS 3)A component of the PHYA signaling network, mediates the FR-HIR response to far-red light in concert with FAR1.O.I.H.G.S.X.
0.8089.80.96At2g25760817118protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:unknown;MBOPFVAO.I.H.G.S.X.
0.7184.20.95At5g51340835208unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOBO.I.H.G.S.X.
0.6378.10.95At1g54490841891XRN4 (EXORIBONUCLEASE 4)Involved in the ethylene response. XRN4 does not appear to regulate ethylene signaling via an RNA-INDUCED SILENCING COMPLEX-based RNA silencing mechanism but acts by independent means. Endogenous suppressor of posttranscriptional gene silencing.O.I.H.G.S.X.
0.6378.10.95At5g06120830499Ran-binding protein, putativeF:protein transporter activity, binding;P:intracellular protein transport, protein import into nucleus, docking;C:nucleus, nuclear pore, cytoplasm;MOPO.I.H.G.S.X.
0.5974.70.95At5g18190831937protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MBOPFVAO.I.H.G.S.X.
0.5368.60.96At3g05090819671transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFOBPAVO.I.H.G.S.X.
0.5065.30.96At2g27900817335unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.5065.30.96At5g28850833004calcium-binding EF hand family proteinF:calcium ion binding;P:biological_process unknown;C:endomembrane system;MOPFO.I.H.G.S.X.
0.4659.80.96At1g80930844433MIF4G domain-containing protein / MA3 domain-containing proteinF:protein binding, RNA binding, binding;P:translation, RNA metabolic process;C:cytosol, nucleus;MOFBPVAO.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
82.599.9GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
81.399.9GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
80.999.9GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
80.599.9GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
75.899.9GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
74.899.9GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
72.599.9GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
72.099.9GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
71.899.9GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
67.399.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
66.799.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
65.299.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
65.099.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
61.399.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
61.099.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
60.099.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
59.899.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
59.399.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
57.199.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.399.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
45.299.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.799.8E-MEXP-711-raw-cel-1563002902
29.199.7GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
28.799.7GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
27.699.7E-ATMX-27-raw-cel-1441080540
16.799.5GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
14.899.4E-ATMX-27-raw-cel-1441080508
14.799.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
13.899.4GSM205185protoplast_KIN10_rep2GSE8257Identification of KIN10-target genes in Arabidopsis mesophyll cellsLink to GEO
13.799.4GSM131539ATGE_25_CGSE5630AtGenExpress: Developmental series (leaves)Link to GEO
13.599.4GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.899.3E-ATMX-25-raw-cel-1441077482
12.599.3E-ATMX-25-raw-cel-1441077500
12.399.3GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.199.3E-MEXP-475-raw-cel-680982521
11.799.3E-MEXP-509-raw-cel-829148808
11.499.3GSM128661Underwood_1-14_Cor-5x10e7-10h_Rep2_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO
10.699.2GSM176880AWP_Control_2GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
10.599.2E-ATMX-25-raw-cel-1441077517
10.499.2GSM133731Buchanan-Wollaston_A-3-bwoll-C0S_SLDGSE5727The effects of mutants in stress response pathways on gene expression during senescenceLink to GEO
10.499.2GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.399.2GSM131538ATGE_25_BGSE5630AtGenExpress: Developmental series (leaves)Link to GEO
10.399.2GSM133736Buchanan-Wollaston_A-8-bwoll-Ei2_SLDGSE5727The effects of mutants in stress response pathways on gene expression during senescenceLink to GEO
9.899.1GSM131537ATGE_25_AGSE5630AtGenExpress: Developmental series (leaves)Link to GEO
9.699.1GSM131605ATGE_41_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.599.1GSM133810Diamond_A-3-Diamo-fum_SLDGSE5735Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)Link to GEO
9.599.1E-ATMX-27-raw-cel-1441080524
8.899.0GSM268245dor-drought-1, biological rep 1GSE10643Transcription profiling of Arabidopsis dor mutant and wild-type plants in response to drought stress.Link to GEO
8.799.0GSM131303AtGen_6-2611_Osmoticstress-Shoots-24.0h_Rep1GSE5622AtGenExpress: Stress Treatments (Osmotic stress)Link to GEO
8.799.0E-MEXP-509-raw-cel-829148842

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1821GO:0000291The chemical reactions and pathways resulting in the breakdown of the transcript body of a nuclear-transcribed mRNA that occurs when the ends are not protected by the 5'-cap or the 3'-poly(A) tail.Link to AmiGO
0.1541GO:0009961A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a 1-aminocyclopropane-1-carboxylic acid stimulus.Link to AmiGO
0.1431GO:0031087Cleavage of the 5'-cap of a nuclear-transcribed mRNA that is independent of poly(A) tail shortening.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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