Co-expression analysis

Gene ID At3g20440
Gene name alpha-amylase/ catalytic/ cation binding
Module size 5 genes
NF 0.14
%ile 10.9



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
0.4050.81.00At3g20440821589alpha-amylase/ catalytic/ cation bindingF:cation binding, catalytic activity, alpha-amylase activity;P:embryonic development ending in seed dormancy, carbohydrate metabolic process;C:chloroplast;BPOMFAO.I.H.G.S.X.
0.1811.40.90At1g66520842970pde194 (pigment defective 194)F:hydroxymethyl-, formyl- and related transferase activity, formyltetrahydrofolate deformylase activity, catalytic activity;P:purine ribonucleotide biosynthetic process, biosynthetic process;C:unknown;BOMFPAVO.I.H.G.S.X.
0.1811.40.87At3g58520825021ubiquitin thiolesteraseF:ubiquitin thiolesterase activity;P:ubiquitin-dependent protein catabolic process;C:intracellular;PO.I.H.G.S.X.
0.135.80.86At5g47460834796pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFBO.I.H.G.S.X.
0.092.80.88At2g40720818667pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:unknown;C:cellular_component unknown;POMFBO.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
139.099.9GSM133773Lindsey_1-25_torpedo-meristem_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
60.199.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
56.899.8GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
44.899.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.599.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.099.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.599.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.399.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.299.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.699.7E-ATMX-35-raw-cel-1574334880
35.499.7E-MEXP-285-raw-cel-440782791
34.799.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.099.7E-ATMX-35-raw-cel-1574334864
32.599.7E-MEXP-285-raw-cel-440782725
31.999.7GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
31.299.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.699.7E-MEXP-1138-raw-cel-1432773002
29.599.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.599.7GSM179960Arabidopsis roots, ethylene treatment, replica 1GSE7432Ethylene and auxin interactions in the roots of Arabidopsis seedlingsLink to GEO
29.399.7E-MEXP-1138-raw-cel-1432772650
28.999.7E-MEXP-1138-raw-cel-1432773130
28.599.7GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
28.399.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.899.7E-MEXP-1138-raw-cel-1432773034
27.399.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.199.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
26.499.7E-ATMX-35-raw-cel-1574334848
26.199.7E-MEXP-1138-raw-cel-1432773066
25.899.7E-MEXP-1138-raw-cel-1432772618
25.699.7E-MEXP-1138-raw-cel-1432773098
25.499.6GSM179969Arabidopsis aux1 mutant roots, ethylene treatment, replica 1GSE7432Ethylene and auxin interactions in the roots of Arabidopsis seedlingsLink to GEO
25.499.6GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.299.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.199.6E-MEXP-1138-raw-cel-1432772938
25.099.6E-MEXP-1138-raw-cel-1432772810
24.499.6GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
23.899.6E-MEXP-1138-raw-cel-1432772586
23.799.6E-MEXP-1138-raw-cel-1432772682
23.299.6GSM131636ATGE_73_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
23.299.6E-MEXP-1138-raw-cel-1432772554
23.099.6E-MEXP-1138-raw-cel-1432772906
23.099.6GSM239251Columbia glabrous (C24) wild type pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
22.999.6GSM154508Arabidopsis growing pollen tubes rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
22.199.6E-MEXP-1138-raw-cel-1432772522
21.299.6GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.299.6GSM154506Arabidopsis hydrated pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
20.899.6GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.399.6GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
19.999.6E-MEXP-1138-raw-cel-1432773226
19.099.5E-MEXP-1138-raw-cel-1432773386
18.999.5E-MEXP-1138-raw-cel-1432772842
18.699.5E-MEXP-1138-raw-cel-1432773290
18.499.5E-MEXP-1138-raw-cel-1432773258
18.499.5E-MEXP-1138-raw-cel-1432772778
18.399.5E-MEXP-1138-raw-cel-1432772874
18.199.5GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.199.5GSM179961Arabidopsis roots, ethylene treatment, replica 2GSE7432Ethylene and auxin interactions in the roots of Arabidopsis seedlingsLink to GEO
18.199.5E-MEXP-1138-raw-cel-1432773354
17.299.5E-MEXP-1138-raw-cel-1432772714
16.199.5E-MEXP-1138-raw-cel-1432773162
16.199.5E-MEXP-1138-raw-cel-1432773322
15.799.5GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
15.599.5GSM154505Arabidopsis hydrated pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
15.599.5E-MEXP-1138-raw-cel-1432772970
15.299.4GSM154504Arabidopsis desiccated mature pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
15.099.4GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.999.4E-MEXP-1138-raw-cel-1432772746
14.999.4GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
14.999.4GSM239254CaMV::DME stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
14.599.4GSM131225AtGen_6-0021_Control-Roots-0h_Rep1GSE5620AtGenExpress: Stress Treatments (Control plants)Link to GEO
14.199.4GSM218596Whole roots 3.5hr KNO3 treated then frozen, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.199.4E-MEXP-1138-raw-cel-1432773194
14.099.4GSM184561Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes with KNO3, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.999.4GSM157324Hammond_3-17_Potassium-starved-root_Rep3_ATH1GSE6825Differential gene expression patterns in potassium-starved and Caesium-treated plantsLink to GEO
13.299.4GSM218593Whole roots 3.5hr KCl control treated then frozen, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
12.899.3GSM75521slr-1 6h NAA replicate 2GSE3350SLR/IAA14-dependent auxin induced lateral root initiationLink to GEO
12.599.3GSM157315Hammond_3-5_Potassium-starved-root_Rep1_ATH1GSE6825Differential gene expression patterns in potassium-starved and Caesium-treated plantsLink to GEO
12.499.3GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
12.499.3GSM179970Arabidopsis aux1 mutant roots, ethylene treatment, replica 2GSE7432Ethylene and auxin interactions in the roots of Arabidopsis seedlingsLink to GEO
12.499.3GSM75519slr-1 0h NAA replicate 2GSE3350SLR/IAA14-dependent auxin induced lateral root initiationLink to GEO
12.099.3GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.099.3GSM154503Arabidopsis desiccated mature pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
11.899.3GSM157327Hammond_3-11_Potassium-starved-root_Rep2_ATH1GSE6825Differential gene expression patterns in potassium-starved and Caesium-treated plantsLink to GEO
11.799.3GSM239252Columbia glabrous (C24) wild type stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
11.699.3GSM242956Steroid day 1 (day1D2)GSE9605Target genes of AGAMOUS during early flower development in ArabidopsisLink to GEO
11.399.3GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.399.3GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
11.099.2GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
10.599.2GSM184533Protoplasted root cells 2hr KCl control treated, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.299.2GSM218595Whole roots 3.5hr KNO3 treated then frozen, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.299.2E-MEXP-828-raw-cel-1156922509
10.099.2GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.999.1GSM157329Coates_1-1_Col-0_Rep1_ATH1GSE6826Identification of candidate Arabidillo target genes in ArabidopsisLink to GEO
9.499.1GSM131229AtGen_6-0721_Control-Roots-0.25h_Rep1GSE5620AtGenExpress: Stress Treatments (Control plants)Link to GEO
9.299.1GSM131608ATGE_42_DGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.299.1GSM154507Arabidopsis growing pollen tubes rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
8.999.0GSM226548Slice6JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
8.899.0GSM184560Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes with KNO3, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
8.799.0GSM131458AtGen_6-9822_Heatstress(3h)+1hrecovery-Roots-4.0h_Rep2GSE5628AtGenExpress: Stress Treatments (Heat stress)Link to GEO
8.699.0GSM131606ATGE_42_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1671GO:0009152The chemical reactions and pathways resulting in the formation of a purine ribonucleotide, a compound consisting of ribonucleoside (a purine base linked to a ribose sugar) esterified with a phosphate moiety at either the 3' or 5'-hydroxyl group of its glycose moiety.Link to AmiGO
0.0171GO:0009058The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.091100670One carbon pool by folateLink to KEGG PATHWAY
0.038100970Aminoacyl-tRNA biosynthesisLink 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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