Co-expression analysis

Gene ID At4g29520
Gene name -
Module size 6 genes
NF 0.47
%ile 66.0



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
0.6176.71.00At4g29520829073-F:unknown;P:unknown;C:endoplasmic reticulum, plasma membrane;OMPFAO.I.H.G.S.X.
0.6075.70.90At1g04980839355ATPDIL2-2 (PDI-LIKE 2-2)Encodes a protein disulfide isomerase-like (PDIL) protein, a member of a multigene family within the thioredoxin (TRX) superfamily. Transcript levels for this gene are up-regulated in response to three different chemical inducers of ER stress (dithiothreitol, beta-mercaptoethanol, and tunicamycin). AtIRE1-2 does not appear to be required for this response, but the atbzip60 mutant has a diminished response.O.I.H.G.S.X.
0.5974.70.87At3g62600825434ATERDJ3BJ domain protein localized in ER lumen. Can partially compensate for the growth defect in jem1 scj1 mutant yeast.O.I.H.G.S.X.
0.5065.30.82At5g03160831917ATP58IPK (ARABIDOPSIS HOMOLOG OF MAMALLIAN P58IPK)J domain protein localized in ER lumen. Can partially compensate for the growth defect in jem1 scj1 mutant yeast.O.I.H.G.S.X.
0.3338.10.86At1g14360837998UTR3 (UDP-GALACTOSE TRANSPORTER 3)F:pyrimidine nucleotide sugar transmembrane transporter activity;P:unknown;C:endomembrane system;MOPFO.I.H.G.S.X.
0.3338.10.86At5g28540832950BIP1Encodes the luminal binding protein BiP, an ER-localized member of the HSP70 family. BiP is composed of an N-terminal ATP binding domain and a C-terminal domain that binds to hydrophobic patches on improperly/incompletely folded proteins in an ATP-dependent manner.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
101.799.9GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
75.799.9GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
56.099.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
52.099.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.499.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
50.799.8GSM142739DH001_ATH1_A6-TCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
49.399.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.699.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.699.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.599.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.099.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.899.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.599.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.299.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.399.8GSM142664NE001_ATH1_A2-Evans-w30GSE6154Molecular basis of respiratory burst-mediated thermotolerance in ArabidopsisLink to GEO
38.099.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.399.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.899.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.899.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.999.7GSM226540L10SBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
32.399.7GSM142667NE001_ATH1_A5-Evans-m30GSE6154Molecular basis of respiratory burst-mediated thermotolerance in ArabidopsisLink to GEO
31.099.7GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
30.499.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.699.7GSM133779Lindsey_1-5_globular-basal_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
27.199.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.799.7E-MEXP-1138-raw-cel-1432773290
25.699.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
23.199.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
22.999.6E-MEXP-1138-raw-cel-1432773258
20.299.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
18.599.5GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
18.299.5GSM131636ATGE_73_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
16.399.5GSM226551Slice9JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
16.199.5GSM154504Arabidopsis desiccated mature pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
15.799.5GSM226552Slice10JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
15.499.5GSM106916opr3_JA_22 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
15.399.4GSM239252Columbia glabrous (C24) wild type stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
15.199.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
14.799.4GSM226541L11SBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
14.799.4E-MEXP-1138-raw-cel-1432773322
14.299.4GSM142773AM002_ATH1_A8-MCCOR-GDBGSE6169Seedling transcriptome affected by a far-red light preconditioning treatment to block chloroplast development.Link to GEO
13.999.4GSM311269ged1 seedlings, biological rep1GSE12401Transcript abundance data from seedlings of wild-type Ws and ged1 (greening after extended darkness 1) mutantLink to GEO
13.299.4E-MEXP-1138-raw-cel-1432773354
13.299.4GSM311270ged1 seedlings, biological rep2GSE12401Transcript abundance data from seedlings of wild-type Ws and ged1 (greening after extended darkness 1) mutantLink to GEO
13.299.4GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
12.799.3GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.599.3E-ATMX-35-raw-cel-1574334864
11.899.3GSM239251Columbia glabrous (C24) wild type pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
11.499.3E-MEXP-1138-raw-cel-1432773386
11.099.2GSM106969opr3_OPDA_22 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
11.099.2GSM142779AM002_ATH1_A4-MCCOR-GDAGSE6169Seedling transcriptome affected by a far-red light preconditioning treatment to block chloroplast development.Link to GEO
10.999.2GSM226553Slice11JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
10.799.2GSM131591ATGE_36_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.699.2GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.499.2GSM239254CaMV::DME stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
10.199.2GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.699.1GSM226539L9SBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
9.599.1E-MEXP-1138-raw-cel-1432773226
9.499.1GSM131593ATGE_36_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.399.1E-MEXP-1138-raw-cel-1432773066
9.399.1GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.199.1GSM142778AM002_ATH1_A3-MCCOR-GFAGSE6169Seedling transcriptome affected by a far-red light preconditioning treatment to block chloroplast development.Link to GEO
9.199.1GSM106917opr3_JA_22 hrs_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.099.1GSM142772AM002_ATH1_A7-MCCOR-GFBGSE6169Seedling transcriptome affected by a far-red light preconditioning treatment to block chloroplast development.Link to GEO
8.999.0GSM131592ATGE_36_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
8.699.0GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2861GO:0030433The chemical reactions and pathways resulting in the breakdown of unfolded or misfolded proteins transported from the endoplasmic reticulum and targeted to cytoplasmic proteasomes for degradation.Link to AmiGO
0.1541GO:0034976A change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating endoplasmic reticulum (ER) stress. ER stress usually results from the accumulation of unfolded or misfolded proteins in the ER lumen.Link to AmiGO
0.0161GO:0009408A 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 heat stimulus, a temperature stimulus above the optimal temperature for that organism.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



Back to the CoP portal site

Back to the KAGIANA project homepage