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    Exd2 exonuclease 3'-5' domain containing 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362759, updated on 10-Jul-2024

    Summary

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    Official Symbol
    Exd2provided by RGD
    Official Full Name
    exonuclease 3'-5' domain containing 2provided by RGD
    Primary source
    RGD:1311087
    See related
    EnsemblRapid:ENSRNOG00000027707 AllianceGenome:RGD:1311087
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Exdl2; RGD1311087
    Summary
    Predicted to enable 3'-5' exonuclease activity; metal ion binding activity; and protein homodimerization activity. Predicted to be involved in nucleic acid metabolic process. Predicted to be located in intermediate filament cytoskeleton; mitochondrial outer membrane; and site of DNA damage. Predicted to be active in cytoplasm and nucleus. Orthologous to human EXD2 (exonuclease 3'-5' domain containing 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 90.0), Kidney (RPKM 60.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Exd2 in Genome Data Viewer
    Location:
    6q24
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (105847931..105881780)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (100116867..100150452)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (104017620..104051442)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene ornithine decarboxylase-like Neighboring gene ornithine decarboxylase-like Neighboring gene polypeptide N-acetylgalactosaminyltransferase 16 Neighboring gene uncharacterized LOC134479446 Neighboring gene ERH, mRNA splicing and mitosis factor

    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. The structure of human EXD2 reveals a chimeric 3' to 5' exonuclease domain that discriminates substrates via metal coordination. Park J, et al. Nucleic Acids Res, 2019 Jul 26. PMID 31127291, Free PMC Article
    2. The mitochondrial outer-membrane location of the EXD2 exonuclease contradicts its direct role in nuclear DNA repair. Hensen F, et al. Sci Rep, 2018 Mar 29. PMID 29599527, Free PMC Article
    3. EXD2 Protects Stressed Replication Forks and Is Required for Cell Viability in the Absence of BRCA1/2. Nieminuszczy J, et al. Mol Cell, 2019 Aug 8. PMID 31255466, Free PMC Article
    4. EXD2 promotes homologous recombination by facilitating DNA end resection. Broderick R, et al. Nat Cell Biol, 2016 Mar. PMID 26807646, Free PMC Article
    5. Synaptic protein ubiquitination in rat brain revealed by antibody-based ubiquitome analysis. Na CH, et al. J Proteome Res, 2012 Sep 7. PMID 22871113, Free PMC Article

    See all (7) 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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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 3'-5' exonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables 3'-5' exonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables 3'-5'-DNA exonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables 3'-5'-RNA exonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables magnesium ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables manganese ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables single-stranded DNA 3'-5' DNA exonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA double-strand break processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in double-strand break repair ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in double-strand break repair via homologous recombination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in replication fork processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in intermediate filament cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrial outer membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in site of DNA damage ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    exonuclease 3'-5' domain-containing protein 2
    Names
    exonuclease 3''-5'' domain-like 2
    NP_001102185.1
    XP_006240348.1
    XP_038968439.1

    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_001108715.1 → NP_001102185.1  exonuclease 3'-5' domain-containing protein 2

      See identical proteins and their annotated locations for NP_001102185.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473982
      UniProtKB/TrEMBL
      B2GUW4, F7FEI8
      Conserved Domains (1) summary
      cd06141
      Location:109 → 285
      WRN_exo; DEDDy 3'-5' exonuclease domain of WRN and similar proteins

    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_086024.1 Reference GRCr8

      Range
      105847931..105881780
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039112511.2 → XP_038968439.1  exonuclease 3'-5' domain-containing protein 2 isoform X1

      UniProtKB/TrEMBL
      B2GUW4, F7FEI8
      Conserved Domains (1) summary
      cd06141
      Location:109 → 285
      WRN_exo; DEDDy 3'-5' exonuclease domain of WRN and similar proteins

    2. XM_006240286.4 → XP_006240348.1  exonuclease 3'-5' domain-containing protein 2 isoform X1

      See identical proteins and their annotated locations for XP_006240348.1

      UniProtKB/TrEMBL
      B2GUW4, F7FEI8
      Related
      ENSRNOP00000030862.6, ENSRNOT00000033378.7
      Conserved Domains (1) summary
      cd06141
      Location:109 → 285
      WRN_exo; DEDDy 3'-5' exonuclease domain of WRN and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version

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