Co-expression analysis

Gene ID At1g66530
Gene name arginyl-tRNA synthetase, putative / arginine--tRNA ligase, putative
Module size 8 genes
NF 0.30
%ile 36.3

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
1.00100.01.00At1g66530842971arginyl-tRNA synthetase, putative / arginine--tRNA ligase, putativeF:aminoacyl-tRNA ligase activity, nucleotide binding, arginine-tRNA ligase activity, ATP binding;P:arginyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:cytoplasm;OBMAFPVO.I.H.G.S.X.
0.6781.60.92At4g29830829105VIP3 (vernalization independence 3)The protein is composed of repeats of WD motif which is involved in protein complex formation. The gene is involved in flower timing and flower development. This gene is predicted to encode a protein with a DWD motif. It can bind to DDB1a in Y2H assays, and DDB1b in co-IP assays, and may be involved in the formation of a CUL4-based E3 ubiquitin ligase. Loss of gene function leads to a redistribution of H3K4me3 and K3K36me2 modifications within genes but not a change in the overall abundance of these modifications within chromatin.O.I.H.G.S.X.
0.3032.10.92At3g60830825254ATARP7 (ACTIN-RELATED PROTEIN 7)Encodes an actin-related protein required for normal embryogenesis, plant architecture and floral organ abscission.O.I.H.G.S.X.
0.2319.30.92At1g04190839442tetratricopeptide repeat (TPR)-containing proteinF:binding;P:biological_process unknown;C:cellular_component unknown;OBMPFAO.I.H.G.S.X.
0.2217.50.92At3g62940825469OTU-like cysteine protease family proteinF:cysteine-type peptidase activity;P:biological_process unknown;C:cellular_component unknown;OMFBPVAO.I.H.G.S.X.
0.2014.40.92At1g25350839120OVA9 (ovule abortion 9)F:glutamine-tRNA ligase activity;P:glutamyl-tRNA aminoacylation, translation, ovule development;C:cytosol;BOMFAPO.I.H.G.S.X.
0.1811.40.92At5g51120835186PABN1 (POLYADENYLATE-BINDING PROTEIN 1)Encodes a homolog of the protein PABN1, a polyadenylation factor subunit.O.I.H.G.S.X. protein 1 epsilon subunit, putative / TCP-1-epsilon, putative / chaperonin, putativeF:unfolded protein binding, protein binding, ATP binding;P:protein folding, cellular protein metabolic process;C:plasma membrane;BOMFPAO.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
190.3100.0GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
140.899.9GSM284388Arabidopsis GMPE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
101.799.9GSM311276Laser capture microdissected (LCM) micropylar endospermr at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
84.899.9GSM311275Laser capture microdissected (LCM) micropylar endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
56.099.8GSM284386Arabidopsis GSUS3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
54.499.8GSM284387Arabidopsis GSUS4bGSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.199.2GSM205156protoplast_controlDNA_rep1GSE8257Identification of KIN10-target genes in Arabidopsis mesophyll cellsLink to GEO
9.399.1GSM133968Birnbaum_1-19_LRC-1_Rep1_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
8.699.0GSM147963WT Globular Stage Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2221GO:0010452The modification of histone H3 by addition of a methyl group to lysine at position 36 of the histone.Link to AmiGO
0.2001GO:0006420The process of coupling arginine to arginyl-tRNA, catalyzed by arginyl-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
0.1671GO:0009653The process by which anatomical structures are generated and organized. Morphogenesis pertains to the creation of form.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.073200970Aminoacyl-tRNA biosynthesisLink to KEGG PATHWAY
0.036103018RNA degradationLink to KEGG PATHWAY
0.002101100Metabolic pathwaysLink to KEGG PATHWAY

Inter-species module comparison

Select a plant to compare co-expressed genes between species.

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