Co-expression analysis

Gene ID At5g40820
Gene name ATRAD3
Module size 13 genes
NF 0.43
%ile 59.9



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
0.5570.61.00At5g40820834082ATRAD3Encodes a Arabidopsis ortholog of the ATR protein kinase that is involved in a wide range of responses to DNA damage and plays a central role in cell-cycle regulation. Dominant loss of function alleles identified as suppressors of ALS also exhibit increased tolerance to aluminum. This may be due to the inhibition of terminal differentiation of the root apex upon exposure to Al.O.I.H.G.S.X.
0.6579.60.89At1g55970842048HAC4 (HISTONE ACETYLTRANSFERASE OF THE CBP FAMILY 4)HAC4 is most likely to be an expressed pseudogene that lacks HAT function. there is a single nucleotide deletion in both the HAC4 genomic and cDNA sequences relative to its homologs. The resulting frameshift within the open reading frame causes a stop codon to occur within the predicted acetyltransferase catalytic domain.O.I.H.G.S.X.
0.5673.00.89At5g04050830284-F:molecular_function unknown;P:RNA splicing;C:cellular_component unknown;BPOFMAO.I.H.G.S.X.
0.5570.60.90At4g16570827358PRMT7 (PROTEIN ARGININE METHYLTRANSFERASE 7)F:methyltransferase activity;P:protein amino acid methylation;C:chloroplast;MFOPBAO.I.H.G.S.X.
0.5368.60.90At2g33760817942pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:unknown;C:cellular_component unknown;POMFBAO.I.H.G.S.X.
0.5166.30.90At4g25270828630pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:chloroplast;POMFBO.I.H.G.S.X.
0.5065.30.88At1g30010839880intron maturase, type II family proteinF:RNA binding, RNA-directed DNA polymerase activity;P:RNA-dependent DNA replication, RNA splicing;C:unknown;BPOFAMVO.I.H.G.S.X.
0.4457.20.89At2g40720818667pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:unknown;C:cellular_component unknown;POMFBO.I.H.G.S.X.
0.4050.80.91At4g20060827751EMB1895 (EMBRYO DEFECTIVE 1895)F:binding;P:embryonic development ending in seed dormancy;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.3948.40.90At4g29560829077unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO.I.H.G.S.X.
0.3541.60.88At3g06600819839unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.2930.30.90At5g19830832103aminoacyl-tRNA hydrolaseF:aminoacyl-tRNA hydrolase activity;P:translation;C:mitochondrion;BOPFMO.I.H.G.S.X.
0.2420.70.88At5g19840832104transcription factor jumonji (jmjC) domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MBOFPVO.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
75.999.9GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
75.399.9GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
60.899.8GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
44.999.8GSM106833opr3_JA_0.5 hr_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
24.299.6GSM106919opr3_OPDA_0.5 hr_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
23.299.6GSM106827opr3_0 hr_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
22.199.6GSM106908opr3_JA_0.5 hr_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
21.399.6GSM106825opr3_0 hr_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
20.399.6GSM106921opr3_OPDA_0.5 hr_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
19.599.6GSM106934opr3_OPDA_8 hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
18.999.5GSM106922opr3_OPDA_2 hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
17.999.5GSM239254CaMV::DME stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
17.999.5GSM106920opr3_OPDA_0.5 hr_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
17.099.5GSM106966opr3_OPDA_8 hrs_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
16.199.5GSM106924opr3_OPDA_2 hrs_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
15.699.5GSM131592ATGE_36_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
14.899.4GSM131591ATGE_36_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
14.799.4GSM106973ws_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
13.899.4GSM106909opr3-JA_2 hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
13.599.4GSM106911opr2_JA_2 hrs_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
12.699.3GSM106907opr3_JA_0.5 hr_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
11.599.3GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.499.3GSM131593ATGE_36_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
11.199.2E-MEXP-1592-raw-cel-1617526968
11.099.2E-MEXP-1592-raw-cel-1617526864
10.499.2E-MEXP-849-raw-cel-1181980942
10.399.2GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.199.2GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.099.2GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.999.1GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.899.1GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
9.899.1GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.799.1E-MEXP-849-raw-cel-1181980966
9.599.1GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.499.1GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
9.399.1GSM106910opr3_JA_2 hrs_rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.399.1E-MEXP-849-raw-cel-1181980894
9.399.1E-MEXP-849-raw-cel-1181980958
9.299.1GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.099.1GSM106912opr3_JA 8hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
8.999.0GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
8.799.0E-MEXP-285-raw-cel-440782725
8.799.0GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
8.799.0GSM133118RIKEN-YAMAUCHI1BGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1331GO:0007004The maintenance of proper telomeric length by the addition of telomeric repeats by telomerase.Link to AmiGO
0.1331GO:0032204Any process that modulates the frequency, rate or extent of a process that affects and monitors the activity of telomeric proteins and the length of telomeric DNA.Link to AmiGO
0.1331GO:0033044Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of a chromosome.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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