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

Gene ID: 241624, updated on 3-Apr-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 3'-5' exonuclease activity and RNA binding activity. Involved in gene silencing by RNA and piRNA metabolic process. Part of PET complex. Is expressed in testis. Orthologous to human EXD1 (exonuclease 3'-5' domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
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
  • 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. 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
  5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

See all (13) 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)
  • Targeted (3)  1 citation
  • Endonuclease-mediated (2) 

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables 3'-5' exonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within meiotic cell cycle IEA
Inferred from Electronic Annotation
more info
  
involved_in nucleobase-containing compound metabolic process 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
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 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  

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

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