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    Exd1 exonuclease 3'-5' domain containing 1 [ Mus musculus (house mouse) ]

    Gene ID: 241624, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Exd1provided by MGI
    Official Full Name
    exonuclease 3'-5' domain containing 1provided by MGI
    Primary source
    MGI:MGI:3045306
    See related
    Ensembl:ENSMUSG00000048647 AllianceGenome:MGI:3045306
    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
    Exdl1; mExd1; 4932702D22Rik
    Summary
    Predicted to enable RNA binding activity and protein homodimerization activity. Involved in piRNA processing. Part of PET complex. Is expressed in testis. Orthologous to human EXD1 (exonuclease 3'-5' domain containing 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in testis adult (RPKM 2.0), bladder adult (RPKM 0.9) and 16 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Exd1 in Genome Data Viewer
    Location:
    2 E5; 2 59.97 cM
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (119346986..119378108, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (119516505..119547627, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene INO80 complex subunit Neighboring gene STARR-seq mESC enhancer starr_05481 Neighboring gene STARR-positive B cell enhancer ABC_E5969 Neighboring gene STARR-seq mESC enhancer starr_05483 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:119303641-119303888 Neighboring gene predicted gene, 33412 Neighboring gene cyclin-dependent kinase 12 pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E2639 Neighboring gene STARR-positive B cell enhancer ABC_E5970 Neighboring gene calcineurin-like EF hand protein 1 Neighboring gene STARR-seq mESC enhancer starr_05487 Neighboring gene STARR-positive B cell enhancer ABC_E1008 Neighboring gene Opa interacting protein 5, opposite strand 1

    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 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. Intermitochondrial cement (IMC) harbors piRNA biogenesis machinery and exonuclease domain-containing proteins EXD1 and EXD2 in mouse spermatocytes. Olotu O, et al. Andrology, 2023 May. PMID 36624638
    2. Exonuclease Domain-Containing 1 Enhances MIWI2 piRNA Biogenesis via Its Interaction with TDRD12. Pandey RR, et al. Cell Rep, 2018 Sep 25. PMID 30257204
    3. PIWI Slicing and EXD1 Drive Biogenesis of Nuclear piRNAs from Cytosolic Targets of the Mouse piRNA Pathway. Yang Z, et al. Mol Cell, 2016 Jan 7. PMID 26669262, Free PMC Article
    4. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article
    5. Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 2003 Nov 25. PMID 14610273, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Intermitochondrial cement (IMC) harbors piRNA biogenesis machinery and exonuclease domain-containing proteins EXD1 and EXD2 in mouse spermatocytes.
      Title: Intermitochondrial cement (IMC) harbors piRNA biogenesis machinery and exonuclease domain-containing proteins EXD1 and EXD2 in mouse spermatocytes.
    2. EXD1 enhances MIWI2 piRNA biogenesis via a functional interaction with TDRD12.
      Title: Exonuclease Domain-Containing 1 Enhances MIWI2 piRNA Biogenesis via Its Interaction with TDRD12.
    3. piRNA biogenesis triggered by PIWI slicing, and promoted by EXD1, ensures that the same guides instruct PIWI proteins in the nucleus and cytoplasm.
      Title: PIWI Slicing and EXD1 Drive Biogenesis of Nuclear piRNAs from Cytosolic Targets of the Mouse piRNA Pathway.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (3)  1 citation

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    NOT enables 3'-5' exonuclease activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables protein homodimerization activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in meiotic cell cycle IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in piRNA processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in piRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulatory ncRNA-mediated gene silencing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in P granule ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of PET complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of PET complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    piRNA biogenesis protein EXD1
    Names
    Vexonuclease 3'-5' domain-like 1
    exonuclease 3'-5' domain-containing protein 1
    exonuclease 3'-5' domain-like 1
    exonuclease 3'-5' domain-like-containing protein 1
    inactive exonuclease EXD1

    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_001407817.1 → NP_001394746.1  piRNA biogenesis protein EXD1

      Status: VALIDATED

      Source sequence(s)
      AL844536, AL844862
      UniProtKB/Swiss-Prot
      Q8CDF7
      Related
      ENSMUSP00000126713.2, ENSMUST00000171024.8

    2. NM_172857.3 → NP_766445.1  piRNA biogenesis protein EXD1

      See identical proteins and their annotated locations for NP_766445.1

      Status: VALIDATED

      Source sequence(s)
      AL844536, AL844862
      Consensus CDS
      CCDS16603.1
      UniProtKB/Swiss-Prot
      Q8CDF7
      UniProtKB/TrEMBL
      B2RWQ8
      Related
      ENSMUSP00000054980.3, ENSMUST00000060009.9
      Conserved Domains (1) summary
      cd06148
      Location:146 → 344
      Egl_like_exo; DEDDy 3'-5' exonuclease domain of Drosophila Egalitarian (Egl) and similar proteins

    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_000068.8 Reference GRCm39 C57BL/6J

      Range
      119346986..119378108 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006499492.3 → XP_006499555.1  piRNA biogenesis protein EXD1 isoform X2

      UniProtKB/TrEMBL
      B2RWQ8
      Conserved Domains (1) summary
      cd06148
      Location:53 → 251
      Egl_like_exo; DEDDy 3'-5' exonuclease domain of Drosophila Egalitarian (Egl) and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8CDF7.1 GenPept UniProtKB/Swiss-Prot:Q8CDF7

    Gene LinkOut

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

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