Co-expression analysis

Gene ID At4g00850
Gene name GIF3 (GRF1-INTERACTING FACTOR 3)
Module size 22 genes
NF 0.37
%ile 50.7



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
0.4659.81.00At4g00850827995GIF3 (GRF1-INTERACTING FACTOR 3)Arabidopsis thaliana GRF1-interacting factor 3 (GIF3) mRNAO.I.H.G.S.X.
0.5267.40.91At2g31340817692emb1381 (embryo defective 1381)F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;PO.I.H.G.S.X.
0.4862.50.89At2g33760817942pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:unknown;C:cellular_component unknown;POMFBAO.I.H.G.S.X.
0.4659.80.89At4g29560829077unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO.I.H.G.S.X.
0.4457.20.89At4g16570827358PRMT7 (PROTEIN ARGININE METHYLTRANSFERASE 7)F:methyltransferase activity;P:protein amino acid methylation;C:chloroplast;MFOPBAO.I.H.G.S.X.
0.4050.80.90At4g34360829586protease-relatedF:methyltransferase activity, catalytic activity;P:metabolic process;C:cellular_component unknown;BOMPFAO.I.H.G.S.X.
0.3846.70.90At1g78930844232mitochondrial transcription termination factor-related / mTERF-relatedF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PMOO.I.H.G.S.X.
0.3846.70.88At4g20060827751EMB1895 (EMBRYO DEFECTIVE 1895)F:binding;P:embryonic development ending in seed dormancy;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.3745.00.89At5g19830832103aminoacyl-tRNA hydrolaseF:aminoacyl-tRNA hydrolase activity;P:translation;C:mitochondrion;BOPFMO.I.H.G.S.X.
0.3643.60.89At3g60310825202unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3643.60.88At2g14050815890MCM9F:nucleoside-triphosphatase activity, DNA-dependent ATPase activity, DNA binding, nucleotide binding, ATP binding;P:DNA replication initiation, DNA replication;C:cellular_component unknown;MOBFAPVO.I.H.G.S.X.
0.3541.60.88At2g40690818664GLY1Encodes a putative dihydroxyacetone phosphate (DHAP) reductase involved in glycerol-3-phosphate supply within the chloroplast for synthesis of glycerolipids. Mutants have reduced levels of hexadecatrienoic acid, which is rescued by exogenous glycerol-3-phosphate. This gene appears to be involved in the flux of fatty acids in the prokaryotic glyerolipid biosynthesis pathway.O.I.H.G.S.X.
0.3541.60.89At3g09370820094MYB3R-3 (myb domain protein 3R-3)putative c-myb-like transcription factor (MYB3R3) mRNA,O.I.H.G.S.X.
0.3541.60.90At1g01740839253protein kinase family proteinF:in 6 functions;P:protein amino acid phosphorylation, N-terminal protein myristoylation;C:plasma membrane;PMBOFVAO.I.H.G.S.X.
0.3439.80.88At4g16320--O.I.H.G.S.X.
0.3133.80.89At2g22260816759oxidoreductase, 2OG-Fe(II) oxygenase family proteinF:oxidoreductase activity;P:metabolic process;C:cellular_component unknown;BOFMPVO.I.H.G.S.X.
0.3133.80.90At3g63290825504unknown proteinF:molecular_function unknown;P:pollen development;C:cellular_component unknown;FPOBO.I.H.G.S.X.
0.3032.10.89At5g26680832721endonuclease, putativeF:5'-3' exonuclease activity, DNA binding, catalytic activity, nuclease activity;P:DNA repair;C:unknown;OMFBAPVO.I.H.G.S.X.
0.2930.30.88At5g19840832104transcription factor jumonji (jmjC) domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MBOFPVO.I.H.G.S.X.
0.2830.30.89At3g50430824207unknown proteinF:unknown;P:unknown;C:unknown;MPO.I.H.G.S.X.
0.2830.30.90At1g31460840036unknown proteinF:molecular_function unknown;P:biological_process unknown;C:plasma membrane;MOBFPVO.I.H.G.S.X.
0.2830.30.88At4g28990829020RNA-binding protein-relatedF:zinc ion binding;P:biological_process unknown;C:intracellular;MPFOBVO.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
62.899.8GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
62.499.8GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
49.499.8GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
27.499.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.299.7GSM106833opr3_JA_0.5 hr_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
26.299.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.899.6GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.799.6GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.699.6GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.399.6GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
20.199.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.599.6GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.599.6GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.499.6GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.199.6GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.099.5GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.999.5GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.799.5GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.599.5GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.099.5GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
17.799.5GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
17.699.5GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
17.399.5GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
17.099.5GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
15.499.5GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
15.499.5GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.899.4GSM131702ATGE_82_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
14.799.4GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
14.199.4GSM106919opr3_OPDA_0.5 hr_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
14.099.4GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
13.499.4GSM106827opr3_0 hr_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
13.099.4GSM131700ATGE_82_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.999.3GSM106908opr3_JA_0.5 hr_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
12.399.3GSM106825opr3_0 hr_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
11.799.3GSM106921opr3_OPDA_0.5 hr_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
11.399.3GSM106934opr3_OPDA_8 hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
11.299.2GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
11.199.2GSM239254CaMV::DME stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
10.999.2GSM106922opr3_OPDA_2 hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
10.399.2GSM106920opr3_OPDA_0.5 hr_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
10.399.2GSM10456WT Post-Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
9.899.1GSM106966opr3_OPDA_8 hrs_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.499.1GSM106924opr3_OPDA_2 hrs_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.299.1GSM131592ATGE_36_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
8.799.0GSM131591ATGE_36_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
8.799.0GSM106973ws_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
8.699.0GSM133118RIKEN-YAMAUCHI1BGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0871GO:0045017The chemical reactions and pathways resulting in the formation of glycerolipids, any lipid with a glycerol backbone.Link to AmiGO
0.0871GO:0046486The chemical reactions and pathways involving glycerolipids, any lipid with a glycerol backbone. Diacylglycerol and phosphatidate are key lipid intermediates of glycerolipid biosynthesis.Link to AmiGO
0.0771GO:0006072The chemical reactions and pathways involving glycerol-3-phosphate, a phosphoric monoester of glycerol.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.067103450Non-homologous end-joiningLink to KEGG PATHWAY
0.034103030DNA replicationLink to KEGG PATHWAY
0.033103410Base 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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