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    Edc3 enhancer of mRNA decapping 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 315708, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Edc3provided by RGD
    Official Full Name
    enhancer of mRNA decapping 3provided by RGD
    Primary source
    RGD:1306898
    See related
    Ensembl:ENSRNOG00000019579 AllianceGenome:RGD:1306898
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Lsm16; RGD1306898
    Summary
    Predicted to enable identical protein binding activity; mRNA binding activity; and phosphodiesterase decapping endonuclease activity. Predicted to be involved in P-body assembly and deadenylation-independent decapping of nuclear-transcribed mRNA. Predicted to be located in cytoplasmic ribonucleoprotein granule. Predicted to be active in P-body. Human ortholog(s) of this gene implicated in autosomal recessive non-syndromic intellectual disability. Orthologous to human EDC3 (enhancer of mRNA decapping 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 92.1), Lung (RPKM 79.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    8q24
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (67002032..67047563)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (58106147..58151685)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (62482126..62527665)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene cytochrome P450, family 1, subfamily a, polypeptide 2 Neighboring gene cytochrome P450, family 1, subfamily a, polypeptide 1 Neighboring gene U6 spliceosomal RNA Neighboring gene CDC-like kinase 3 Neighboring gene single stranded DNA binding protein 1, pseudogene 4

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Mutations in DCPS and EDC3 in autosomal recessive intellectual disability indicate a crucial role for mRNA decapping in neurodevelopment. Ahmed I, et al. Hum Mol Genet, 2015 Jun 1. PMID 25701870, Free PMC Article
    2. Crystal structure of human Edc3 and its functional implications. Ling SH, et al. Mol Cell Biol, 2008 Oct. PMID 18678652, Free PMC Article
    3. The role of disordered protein regions in the assembly of decapping complexes and RNP granules. Jonas S, et al. Genes Dev, 2013 Dec 15. PMID 24352420, Free PMC Article
    4. Sequential Elution Interactome Analysis of the Mind Bomb 1 Ubiquitin Ligase Reveals a Novel Role in Dendritic Spine Outgrowth. Mertz J, et al. Mol Cell Proteomics, 2015 Jul. PMID 25931508, Free PMC Article
    5. An interactome perturbation framework prioritizes damaging missense mutations for developmental disorders. Chen S, et al. Nat Genet, 2018 Jul. PMID 29892012, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in P-body assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in deadenylation-independent decapping of nuclear-transcribed mRNA IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in P-body IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasmic ribonucleoprotein granule ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    enhancer of mRNA-decapping protein 3
    Names
    LSM16 homolog (EDC3, S. cerevisiae)
    enhancer of mRNA decapping 3 homolog

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001399316.1 → NP_001386245.1  enhancer of mRNA-decapping protein 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      Related
      ENSRNOP00000026492.8, ENSRNOT00000026492.8
      Conserved Domains (4) summary
      cd01737
      Location:2 → 64
      LSm16_N; Like-Sm protein 16, N-terminal domain
      pfam09532
      Location:197 → 298
      FDF; FDF domain
      pfam03853
      Location:300 → 453
      YjeF_N; YjeF-related protein N-terminus
      pfam16598
      Location:100 → 195
      Edc3_linker; Linker region of enhancer of mRNA-decapping protein 3

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086026.1 Reference GRCr8

      Range
      67002032..67047563
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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