Co-expression analysis

Gene ID At3g58830
Gene name haloacid dehalogenase (HAD) superfamily protein
Module size 19 genes
NF 0.22
%ile 22.2



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
1.00100.01.00At3g58830825052haloacid dehalogenase (HAD) superfamily proteinF:catalytic activity;P:unknown;C:chloroplast;BOFPO.I.H.G.S.X.
0.5673.00.91At5g24020832467MINDEncodes a Ca2+ dependent ATPase required for correct positioning of the chloroplast division apparatus. Its ATPase activity is stimulated by AtMinE1, a topological specificity factor.O.I.H.G.S.X.
0.4355.30.90At1g53120841746RNA-binding S4 domain-containing proteinF:RNA binding;P:biological_process unknown;C:chloroplast;BOPMO.I.H.G.S.X.
0.4050.80.91At1g26180839159unknown proteinF:unknown;P:unknown;C:unknown;BOPO.I.H.G.S.X.
0.3948.40.90At4g20960827843cytidine/deoxycytidylate deaminase family proteinencodes diaminohydroxyphosphoribosylaminopyrimidine deaminase catalyzing the second step in the riboflavin biosynthesisO.I.H.G.S.X.
0.3846.70.90At5g48830834941unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPOO.I.H.G.S.X.
0.3541.60.91At2g38270818407CXIP2 (CAX-INTERACTING PROTEIN 2)Encodes protein homologous to CXIP1. CXIP1 is a PICOT domain containing protein interacts with CAX1, a high capacity calcium transporter. However, CXP2 does not interact with CAX1 and only moderately activates another calcium transporter CAX4.O.I.H.G.S.X.
0.3439.80.90At5g12130831086PDE149 (PIGMENT DEFECTIVE 149)F:unknown;P:thylakoid membrane organization;C:chloroplast thylakoid membrane, integral to membrane;BOPAMO.I.H.G.S.X.
0.3338.10.91At5g63050836425EMB2759 (embryo defective 2759)F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:unknown;PO.I.H.G.S.X.
0.3032.10.90At3g59870825157unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;OBPO.I.H.G.S.X.
0.3032.10.90At3g10620820231ATNUDX26 (ARABIDOPSIS THALIANA NUDIX HYDROLASE HOMOLOG 26)F:bis(5'-adenosyl)-pentaphosphatase activity, bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) activity;P:unknown;C:chloroplast;BOPMO.I.H.G.S.X.
0.2930.30.90At2g31170817673SYCO ARATHF:cysteine-tRNA ligase activity, nucleotide binding, aminoacyl-tRNA ligase activity, ATP binding;P:cysteinyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:mitochondrion, chloroplast;OBMAFPVO.I.H.G.S.X.
0.2726.20.90At1g08640837386unknown proteinF:unknown;P:unknown;C:chloroplast, chloroplast envelope;PBOO.I.H.G.S.X.
0.2014.40.90At1g11430837685plastid developmental protein DAG, putativeF:unknown;P:unknown;C:chloroplast stroma, chloroplast, chloroplast envelope;PO.I.H.G.S.X.
0.1912.70.90At5g13120831151peptidyl-prolyl cis-trans isomerase cyclophilin-type family proteinF:peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:thylakoid, thylakoid lumen, chloroplast thylakoid membrane, chloroplast thylakoid lumen, chloroplast;OBMFPAVO.I.H.G.S.X.
0.1710.20.91At3g55400824706OVA1 (OVULE ABORTION 1)F:methionine-tRNA ligase activity, aminoacyl-tRNA ligase activity, nucleotide binding, ATP binding;P:ovule development, tRNA aminoacylation for protein translation;C:mitochondrion, chloroplast;BOAFMPVO.I.H.G.S.X.
0.146.80.90At1g11750837719CLPP6One of several nuclear-encoded ClpPs (caseinolytic protease). Contains a highly conserved catalytic triad of Ser-type proteases (Ser-His-Asp). The name reflects nomenclature described in Adam et. al (2001).O.I.H.G.S.X.
0.135.80.91At1g33290840224sporulation protein-relatedF:nucleoside-triphosphatase activity, nucleotide binding;P:unknown;C:unknown;BOPMAO.I.H.G.S.X.
0.082.30.92At4g27600828871pfkB-type carbohydrate kinase family proteinF:kinase activity;P:unknown;C:chloroplast;BOMPAFO.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
110.399.9GSM133775Lindsey_1-27_torpedo-meristem_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
41.099.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
25.999.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
23.099.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.999.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.499.6GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.499.6GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.499.6GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.899.6GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.599.6GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.299.6GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
19.099.5GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.299.5GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
17.899.5GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
17.499.5GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
17.299.5E-MEXP-509-raw-cel-829148703
16.399.5E-MEXP-1138-raw-cel-1432773290
16.299.5GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
16.099.5E-MEXP-807-raw-cel-1173273252
15.499.5GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
14.299.4GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.899.4E-MEXP-807-raw-cel-1173273144
13.399.4E-MEXP-1138-raw-cel-1432773258
13.199.4GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.999.3GSM133758Lindsey_1-11_heart-stage-root_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
12.799.3GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.799.3GSM154504Arabidopsis desiccated mature pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
12.799.3GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.499.3GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.399.3GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.299.3GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
11.499.3GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.299.2GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
10.899.2E-MEXP-807-raw-cel-1173273170
10.199.2E-MEXP-1138-raw-cel-1432773066
10.099.2E-MEXP-807-raw-cel-1173273060
9.899.1E-MEXP-1138-raw-cel-1432773322
9.799.1GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.799.1E-MEXP-807-raw-cel-1173273116
9.199.1GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0911GO:0006423The process of coupling cysteine to cysteinyl-tRNA, catalyzed by cysteinyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA.Link to AmiGO
0.0691GO:0009231The chemical reactions and pathways resulting in the formation of riboflavin (vitamin B2), the precursor for the coenzymes flavin mononucleotide (FMN) and flavin adenine dinucleotide (FAD).Link to AmiGO
0.0671GO:0010020The division of a chloroplast within a cell to form two or more separate chloroplast compartments. This division occurs independently of mitosis.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.074100740Riboflavin metabolismLink to KEGG PATHWAY
0.061200970Aminoacyl-tRNA biosynthesisLink to KEGG PATHWAY
0.044100450Selenoamino acid metabolismLink 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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