Co-expression analysis

Gene ID At4g14590
Gene name emb2739 (embryo defective 2739)
Module size 5 genes
NF 0.30
%ile 38.0



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
0.5773.81.00At4g14590827107emb2739 (embryo defective 2739)F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.3338.10.90At1g55970842048HAC4 (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.
0.3338.10.90At4g13330826963unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMBOO.I.H.G.S.X.
0.3338.10.90At5g08230830719PWWP domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOBFVAO.I.H.G.S.X.
0.1710.20.91At2g33760817942pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:unknown;C:cellular_component unknown;POMFBAO.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
221.2100.0GSM133761Lindsey_1-13_torpedo-cotyledon_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
56.699.8GSM184912Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
52.099.8GSM184893Arabidopsis, root cells, columella root cap, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
25.199.6E-NASC-78-raw-cel-1463195219
22.799.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
22.799.6GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
21.899.6GSM184910Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
21.699.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
20.999.6GSM184911Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
19.899.6E-NASC-78-raw-cel-1463195235
17.799.5E-MEXP-1304-raw-cel-1530618068
17.499.5E-NASC-78-raw-cel-1463195267
17.399.5E-NASC-78-raw-cel-1463195187
16.699.5GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
15.199.4GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
15.199.4GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.999.4E-MEXP-1468-raw-cel-1591138985
14.999.4GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.299.4GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.099.4GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
13.799.4GSM266667Arabidopsis, root cells, columella root cap, -Fe, replicate 2GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
13.699.4GSM282697Col_BRZ_rep1GSE11216Brassinazole treatment of arf2 and wild-type dark-grown seedlingsLink to GEO
13.599.4GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.599.4GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.599.4GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
13.499.4GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.299.4E-MEXP-1304-raw-cel-1530618003
13.199.4GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
12.999.3GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
12.899.3GSM226267WT(Ler)_Dark_replicate1GSE8951A light-independent allele of phytochrome B faithfully recapitulates photomorphogenic transcriptional networksLink to GEO
12.799.3GSM282699Col_BRZ_rep3GSE11216Brassinazole treatment of arf2 and wild-type dark-grown seedlingsLink to GEO
12.399.3E-MEXP-1304-raw-cel-1530618235
12.399.3E-MEXP-1304-raw-cel-1530618171
12.299.3GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
11.899.3GSM133400Knight_2-3_sfr6-lt_Rep1_ATH1GSE5710Dark-induced gene expression in sfr6Link to GEO
11.799.3GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.799.3GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
11.299.2E-MEXP-1468-raw-cel-1591138655
11.199.2E-MEXP-1468-raw-cel-1591138853
11.099.2GSM133765Lindsey_1-17_torpedo-cotyledon_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.099.2GSM266668Arabidopsis, root cells, columella root cap, -Fe, replicate 3GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
10.999.2GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.899.2GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.799.2GSM131177AtGen_D-9_1-DS_REP1_ATH1GSE5617AtGenExpress: Light treatmentsLink to GEO
10.699.2GSM184894Arabidopsis, root cells, columella root cap, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.699.2E-MEXP-1468-raw-cel-1591139018
10.599.2GSM319209Dark-grown WT control (vector#4) GSE12729Microarray analysis of MINI ZINC FINGER 1 (MIF1) overexpression transgenic Arabidopsis seedlingsLink to GEO
10.599.2E-MEXP-1304-raw-cel-1530618275
10.499.2E-MEXP-1304-raw-cel-1530618033
10.499.2GSM131186AtGen_D-19_2-PL_REP2_ATH1GSE5617AtGenExpress: Light treatmentsLink to GEO
10.399.2GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.099.2E-NASC-78-raw-cel-1463195283
10.099.2E-MEXP-1304-raw-cel-1530618136
9.999.1GSM226269WT(Ler)_Dark_replicate3GSE8951A light-independent allele of phytochrome B faithfully recapitulates photomorphogenic transcriptional networksLink to GEO
9.899.1GSM131171AtGen_D-3_1-PL_REP1_ATH1GSE5617AtGenExpress: Light treatmentsLink to GEO
9.899.1GSM142750MJ001_ATH1_A1-jones-WT1GSE6165The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.Link to GEO
9.799.1GSM131190AtGen_D-23_2-UL_REP2_ATH1GSE5617AtGenExpress: Light treatmentsLink to GEO
9.699.1GSM282698Col_BRZ_rep2GSE11216Brassinazole treatment of arf2 and wild-type dark-grown seedlingsLink to GEO
9.099.1E-MEXP-1304-raw-cel-1530617971
9.099.1GSM131205AtGen_D-39_3-UL_REP3_ATH1GSE5617AtGenExpress: Light treatmentsLink to GEO
8.999.0GSM226271phyAphyB_Dark_replicate2GSE8951A light-independent allele of phytochrome B faithfully recapitulates photomorphogenic transcriptional networksLink to GEO
8.899.0GSM226272phyAphyB_Dark_replicate3GSE8951A light-independent allele of phytochrome B faithfully recapitulates photomorphogenic transcriptional networksLink to GEO
8.799.0E-MEXP-1468-raw-cel-1591138886
8.799.0E-NASC-78-raw-cel-1463195203
8.699.0E-MEXP-1468-raw-cel-1591138688
8.699.0GSM142754MJ001_ATH1_A5-jones-WT-Rep3GSE6165The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink 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



Back to the CoP portal site

Back to the KAGIANA project homepage