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    Tatdn1 TatD DNase domain containing 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 690068, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Tatdn1provided by RGD
    Official Full Name
    TatD DNase domain containing 1provided by RGD
    Primary source
    RGD:1585145
    See related
    EnsemblRapid:ENSRNOG00000047198 AllianceGenome:RGD:1585145
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable 3'-5'-DNA exonuclease activity. Predicted to be involved in DNA metabolic process. Predicted to be located in mitochondrion and nucleoplasm. Orthologous to human TATDN1 (TatD DNase domain containing 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Muscle (RPKM 65.4), Liver (RPKM 62.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tatdn1 in Genome Data Viewer
    Location:
    7q33
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (92339452..92370445, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (90449979..90481000, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (98782164..98813001, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene developmental pluripotency associated 3 like 4 Neighboring gene tRNA methyltransferase 12 Neighboring gene ring finger protein 139 Neighboring gene NADH:ubiquinone oxidoreductase subunit B9 Neighboring gene MTSS I-BAR domain containing 1 Neighboring gene uncharacterized LOC120093662 Neighboring gene uncharacterized LOC134479913 Neighboring gene uncharacterized LOC134479912

    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. Quantitative high-confidence human mitochondrial proteome and its dynamics in cellular context. Morgenstern M, et al. Cell Metab, 2021 Dec 7. PMID 34800366, Free PMC Article
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 3'-5'-DNA exonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    deoxyribonuclease TATDN1
    Names
    putative deoxyribonuclease TATDN1
    NP_001387874.1
    NP_001387875.1
    NP_001387876.1
    XP_038936115.1
    XP_038936116.1
    XP_038936117.1
    XP_038936118.1
    XP_038936120.1
    XP_038936121.1
    XP_038936123.1
    XP_038936124.1
    XP_038936128.1
    XP_063120347.1
    XP_063120349.1
    XP_063120350.1

    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_001400945.1 → NP_001387874.1  deoxyribonuclease TATDN1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A0A8I6AHP3
      Related
      ENSRNOP00000092474.1, ENSRNOT00000098252.2

    2. NM_001400946.1 → NP_001387875.1  deoxyribonuclease TATDN1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      Related
      ENSRNOP00000092922.2, ENSRNOT00000106431.2

    3. NM_001400947.1 → NP_001387876.1  deoxyribonuclease TATDN1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A6HRL0

    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_086025.1 Reference GRCr8

      Range
      92339452..92370445 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039080187.2 → XP_038936115.1  deoxyribonuclease TATDN1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZJG5
      Conserved Domains (1) summary
      cd01310
      Location:13 → 278
      TatD_DNAse; TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.

    2. XM_039080195.2 → XP_038936123.1  deoxyribonuclease TATDN1 isoform X4

      Conserved Domains (1) summary
      cd01310
      Location:3 → 226
      TatD_DNAse; TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.

    3. XM_039080193.2 → XP_038936121.1  deoxyribonuclease TATDN1 isoform X4

      Conserved Domains (1) summary
      cd01310
      Location:3 → 226
      TatD_DNAse; TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.

    4. XM_063264277.1 → XP_063120347.1  deoxyribonuclease TATDN1 isoform X4

    5. XM_039080189.2 → XP_038936117.1  deoxyribonuclease TATDN1 isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZJG5, A0A8I6GKF0
      Conserved Domains (1) summary
      cd01310
      Location:20 → 267
      TatD_DNAse; TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.

    6. XM_039080190.2 → XP_038936118.1  deoxyribonuclease TATDN1 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZJG5
      Conserved Domains (1) summary
      cd01310
      Location:1 → 247
      TatD_DNAse; TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.

    7. XM_039080200.2 → XP_038936128.1  deoxyribonuclease TATDN1 isoform X5

      UniProtKB/TrEMBL
      A6HRL0, A6HRL1
      Conserved Domains (1) summary
      cl00281
      Location:1 → 149
      metallo-dependent_hydrolases; Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a ...

    8. XM_063264279.1 → XP_063120349.1  deoxyribonuclease TATDN1 isoform X5

      UniProtKB/TrEMBL
      A6HRL0

    9. XM_063264280.1 → XP_063120350.1  deoxyribonuclease TATDN1 isoform X5

      UniProtKB/TrEMBL
      A6HRL0

    10. XM_039080188.2 → XP_038936116.1  deoxyribonuclease TATDN1 isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZJG5, A0A8I6GKF0
      Related
      ENSRNOP00000110508.1, ENSRNOT00000140583.1
      Conserved Domains (1) summary
      cd01310
      Location:20 → 267
      TatD_DNAse; TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.

    11. XM_039080192.2 → XP_038936120.1  deoxyribonuclease TATDN1 isoform X4

      Conserved Domains (1) summary
      cd01310
      Location:3 → 226
      TatD_DNAse; TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.

    12. XM_039080196.2 → XP_038936124.1  deoxyribonuclease TATDN1 isoform X4

      Conserved Domains (1) summary
      cd01310
      Location:3 → 226
      TatD_DNAse; TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.

    RNA

    1. XR_010053043.1 RNA Sequence

    2. XR_010053044.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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