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    Edc3 enhancer of mRNA decapping 3 [ Mus musculus (house mouse) ]

    Gene ID: 353190, updated on 28-Apr-2024

    Summary

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    Official Symbol
    Edc3provided by MGI
    Official Full Name
    enhancer of mRNA decapping 3provided by MGI
    Primary source
    MGI:MGI:2142951
    See related
    Ensembl:ENSMUSG00000038957 AllianceGenome:MGI:2142951
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Yjdc; Lsm16
    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. Is expressed in cerebellum; embryo; hippocampus; retina inner nuclear layer; and retina outer nuclear layer. 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
    Ubiquitous expression in thymus adult (RPKM 13.6), whole brain E14.5 (RPKM 10.4) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    9 B; 9 31.37 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (57615823..57659782)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (57708540..57750163)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene Cyp1a2 5' enhancer Neighboring gene cytochrome P450, family 1, subfamily a, polypeptide 2 Neighboring gene Cyp1a1 5' regulatory region Neighboring gene cytochrome P450, family 1, subfamily a, polypeptide 1 Neighboring gene STARR-positive B cell enhancer ABC_E11409 Neighboring gene CDC-like kinase 3 Neighboring gene CapStarr-seq enhancers MGSCv37_chr9:57617333-57617516 and MGSCv37_chr9:57617555-57617846 Neighboring gene predicted gene, 32510 Neighboring gene AT-rich interaction domain 3B Neighboring gene STARR-seq mESC enhancer starr_24247 Neighboring gene STARR-positive B cell enhancer ABC_E2889 Neighboring gene STARR-positive B cell enhancer ABC_E6741

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Global phosphoproteomics identifies a major role for AKT and 14-3-3 in regulating EDC3. Larance M, et al. Mol Cell Proteomics, 2010 Apr. PMID 20051463, Free PMC Article
    2. A locus on mouse Chromosome 9 (Adip5) affects the relative weight of the gonadal but not retroperitoneal adipose depot. McDaniel AH, et al. Mamm Genome, 2006 Nov. PMID 17103052, Free PMC Article
    3. RNA Binding Protein Nanos2 Organizes Post-transcriptional Buffering System to Retain Primitive State of Mouse Spermatogonial Stem Cells. Zhou Z, et al. Dev Cell, 2015 Jul 6. PMID 26120033
    4. Fgf and Esrrb integrate epigenetic and transcriptional networks that regulate self-renewal of trophoblast stem cells. Latos PA, et al. Nat Commun, 2015 Jul 24. PMID 26206133, Free PMC Article
    5. Identification of 14-3-3epsilon substrates from embryonic murine brain. Ballif BA, et al. J Proteome Res, 2006 Sep. PMID 16944949

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 
    • Gene trapped (1) 

    Pathways from PubChem

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    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 MGI

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 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 cytoplasm IEA
    Inferred from Electronic Annotation
    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
    enhancer of mRNA decapping 3 homolog
    yjeF domain-containing protein 1

    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_001410071.1 → NP_001397000.1  enhancer of mRNA-decapping protein 3 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC122515
      UniProtKB/Swiss-Prot
      Q3THV7, Q8K2D3
      UniProtKB/TrEMBL
      A0ELI5

    2. NM_001410073.1 → NP_001397002.1  enhancer of mRNA-decapping protein 3 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC122515

    3. NM_153799.4 → NP_722494.1  enhancer of mRNA-decapping protein 3 isoform 1

      See identical proteins and their annotated locations for NP_722494.1

      Status: VALIDATED

      Source sequence(s)
      AC122515
      Consensus CDS
      CCDS23231.1
      UniProtKB/Swiss-Prot
      Q3THV7, Q8K2D3
      UniProtKB/TrEMBL
      A0ELI5
      Related
      ENSMUSP00000049146.8, ENSMUST00000043990.14
      Conserved Domains (4) summary
      cd01737
      Location:4 → 66
      LSm16_N; Like-Sm protein 16, N-terminal domain
      pfam03853
      Location:302 → 455
      YjeF_N; YjeF-related protein N-terminus
      pfam09532
      Location:200 → 300
      FDF; FDF domain
      pfam16598
      Location:102 → 197
      Edc3_linker; Linker region of enhancer of mRNA-decapping protein 3

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000075.7 Reference GRCm39 C57BL/6J

      Range
      57615823..57659782
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036155089.1 → XP_036010982.1  enhancer of mRNA-decapping protein 3 isoform X1

      Conserved Domains (4) summary
      cd01737
      Location:4 → 66
      LSm16_N; Like-Sm protein 16, N-terminal domain
      pfam09532
      Location:200 → 300
      FDF; FDF domain
      pfam03853
      Location:302 → 455
      YjeF_N; YjeF-related protein N-terminus
      pfam16598
      Location:102 → 197
      Edc3_linker; Linker region of enhancer of mRNA-decapping protein 3

    2. XM_036155091.1 → XP_036010984.1  enhancer of mRNA-decapping protein 3 isoform X3

      Conserved Domains (3) summary
      pfam09532
      Location:17 → 117
      FDF; FDF domain
      pfam03853
      Location:119 → 272
      YjeF_N; YjeF-related protein N-terminus
      pfam16598
      Location:1 → 14
      Edc3_linker; Linker region of enhancer of mRNA-decapping protein 3

    3. XM_036155090.1 → XP_036010983.1  enhancer of mRNA-decapping protein 3 isoform X1

      Conserved Domains (4) summary
      cd01737
      Location:4 → 66
      LSm16_N; Like-Sm protein 16, N-terminal domain
      pfam09532
      Location:200 → 300
      FDF; FDF domain
      pfam03853
      Location:302 → 455
      YjeF_N; YjeF-related protein N-terminus
      pfam16598
      Location:102 → 197
      Edc3_linker; Linker region of enhancer of mRNA-decapping protein 3
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8K2D3.1 GenPept UniProtKB/Swiss-Prot:Q8K2D3

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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