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

Gene ID: 353190, updated on 11-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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See Edc3 in Genome Data Viewer
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)
  • Gene trapped (1) 
  • Endonuclease-mediated (3) 

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

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