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    Ino80d INO80 complex subunit D [ Rattus norvegicus (Norway rat) ]

    Gene ID: 316440, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ino80dprovided by RGD
    Official Full Name
    INO80 complex subunit Dprovided by RGD
    Primary source
    RGD:1304808
    See related
    EnsemblRapid:ENSRNOG00000024272 AllianceGenome:RGD:1304808
    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
    RGD1304808
    Summary
    Predicted to be involved in several processes, including regulation of embryonic development; regulation of nucleobase-containing compound metabolic process; and telomere maintenance. Predicted to be part of Ino80 complex. Predicted to be active in nucleus. Orthologous to human INO80D (INO80 complex subunit D). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 108.8), Lung (RPKM 101.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ino80d in Genome Data Viewer
    Location:
    9q32
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (71940941..72007879, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (64447075..64514013, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (69820520..69887475, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein L37, pseudogene 5 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene NOP16 nucleolar protein, pseudogene 2 Neighboring gene NADH:ubiquinone oxidoreductase core subunit S1

    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 INO80 family of chromatin-remodeling enzymes: regulators of histone variant dynamics. Watanabe S, et al. Cold Spring Harb Symp Quant Biol, 2010. PMID 21502417
    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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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA repair ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of telomere maintenance in response to DNA damage ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA repair ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA replication ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA strand elongation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of chromosome organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of embryonic development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in telomere maintenance ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of Ino80 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    INO80 complex subunit D

    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_001191809.1 → NP_001178738.1  INO80 complex subunit D

      See identical proteins and their annotated locations for NP_001178738.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      D3ZTM2
      Related
      ENSRNOP00000037428.4, ENSRNOT00000035879.8
      Conserved Domains (3) summary
      PRK14971
      Location:170 → 285
      PRK14971; DNA polymerase III subunit gamma/tau
      pfam05109
      Location:908 → 1021
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam13891
      Location:18 → 79
      zf-C3Hc3H; Potential DNA-binding domain

    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_086027.1 Reference GRCr8

      Range
      71940941..72007879 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006245025.4 → XP_006245087.1  INO80 complex subunit D isoform X1

      See identical proteins and their annotated locations for XP_006245087.1

      UniProtKB/TrEMBL
      D3ZTM2
      Conserved Domains (3) summary
      PRK14971
      Location:170 → 285
      PRK14971; DNA polymerase III subunit gamma/tau
      pfam05109
      Location:908 → 1021
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam13891
      Location:18 → 79
      zf-C3Hc3H; Potential DNA-binding domain

    2. XM_006245023.3 → XP_006245085.1  INO80 complex subunit D isoform X1

      See identical proteins and their annotated locations for XP_006245085.1

      UniProtKB/TrEMBL
      D3ZTM2
      Conserved Domains (3) summary
      PRK14971
      Location:170 → 285
      PRK14971; DNA polymerase III subunit gamma/tau
      pfam05109
      Location:908 → 1021
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam13891
      Location:18 → 79
      zf-C3Hc3H; Potential DNA-binding domain

    3. XM_006245034.4 → XP_006245096.1  INO80 complex subunit D isoform X2

      See identical proteins and their annotated locations for XP_006245096.1

      Conserved Domains (3) summary
      PRK14971
      Location:65 → 180
      PRK14971; DNA polymerase III subunit gamma/tau
      pfam05109
      Location:803 → 916
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam13891
      Location:337 → 401
      zf-C3Hc3H; Potential DNA-binding domain

    4. XM_039083646.2 → XP_038939574.1  INO80 complex subunit D isoform X2

      Conserved Domains (3) summary
      PRK14971
      Location:65 → 180
      PRK14971; DNA polymerase III subunit gamma/tau
      pfam05109
      Location:803 → 916
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam13891
      Location:337 → 401
      zf-C3Hc3H; Potential DNA-binding domain

    5. XM_006245032.5 → XP_006245094.1  INO80 complex subunit D isoform X1

      See identical proteins and their annotated locations for XP_006245094.1

      UniProtKB/TrEMBL
      D3ZTM2
      Conserved Domains (3) summary
      PRK14971
      Location:170 → 285
      PRK14971; DNA polymerase III subunit gamma/tau
      pfam05109
      Location:908 → 1021
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam13891
      Location:18 → 79
      zf-C3Hc3H; Potential DNA-binding domain

    6. XM_039083645.1 → XP_038939573.1  INO80 complex subunit D isoform X2

      Conserved Domains (3) summary
      PRK14971
      Location:65 → 180
      PRK14971; DNA polymerase III subunit gamma/tau
      pfam05109
      Location:803 → 916
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam13891
      Location:337 → 401
      zf-C3Hc3H; Potential DNA-binding domain

    7. XM_006245026.4 → XP_006245088.1  INO80 complex subunit D isoform X1

      See identical proteins and their annotated locations for XP_006245088.1

      UniProtKB/TrEMBL
      D3ZTM2
      Conserved Domains (3) summary
      PRK14971
      Location:170 → 285
      PRK14971; DNA polymerase III subunit gamma/tau
      pfam05109
      Location:908 → 1021
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam13891
      Location:18 → 79
      zf-C3Hc3H; Potential DNA-binding domain

    8. XM_006245031.4 → XP_006245093.1  INO80 complex subunit D isoform X1

      See identical proteins and their annotated locations for XP_006245093.1

      UniProtKB/TrEMBL
      D3ZTM2
      Conserved Domains (3) summary
      PRK14971
      Location:170 → 285
      PRK14971; DNA polymerase III subunit gamma/tau
      pfam05109
      Location:908 → 1021
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam13891
      Location:18 → 79
      zf-C3Hc3H; Potential DNA-binding domain

    9. XM_006245029.4 → XP_006245091.1  INO80 complex subunit D isoform X1

      See identical proteins and their annotated locations for XP_006245091.1

      UniProtKB/TrEMBL
      D3ZTM2
      Conserved Domains (3) summary
      PRK14971
      Location:170 → 285
      PRK14971; DNA polymerase III subunit gamma/tau
      pfam05109
      Location:908 → 1021
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam13891
      Location:18 → 79
      zf-C3Hc3H; Potential DNA-binding domain

    10. XM_006245033.4 → XP_006245095.1  INO80 complex subunit D isoform X2

      See identical proteins and their annotated locations for XP_006245095.1

      Conserved Domains (3) summary
      PRK14971
      Location:65 → 180
      PRK14971; DNA polymerase III subunit gamma/tau
      pfam05109
      Location:803 → 916
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam13891
      Location:337 → 401
      zf-C3Hc3H; Potential DNA-binding domain
    Nucleotide Protein Strain
    Heading Accession and Version

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