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    Spindoc spindlin interactor and repressor of chromatin binding [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361719, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Spindocprovided by RGD
    Official Full Name
    spindlin interactor and repressor of chromatin bindingprovided by RGD
    Primary source
    RGD:1308106
    See related
    EnsemblRapid:ENSRNOG00000025061 AllianceGenome:RGD:1308106
    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
    Also known as
    RGD1308106
    Summary
    Predicted to be involved in DNA damage response and negative regulation of DNA-templated transcription. Predicted to be active in nucleus and site of DNA damage. Orthologous to human SPINDOC (spindlin interactor and repressor of chromatin binding). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 64.9), Lung (RPKM 44.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Spindoc in Genome Data Viewer
    Location:
    1q43
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (213971995..213995162, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (204541647..204565109, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (222606302..222628839, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene REST corepressor 2 Neighboring gene microtubule affinity regulating kinase 2 Neighboring gene uncharacterized LOC134483963 Neighboring gene zinc finger translocation associated Neighboring gene reticulon 3 Neighboring gene uncharacterized LOC102551693 Neighboring gene atlastin GTPase 3

    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 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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    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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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in DNA damage response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in site of DNA damage ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    spindlin interactor and repressor of chromatin-binding protein
    Names
    uncharacterized protein C11orf84 homolog

    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_001399680.1 → NP_001386609.1  spindlin interactor and repressor of chromatin-binding protein

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      Related
      ENSRNOP00000075651.2, ENSRNOT00000083157.3

    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_086019.1 Reference GRCr8

      Range
      213971995..213995162 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006230864.5 → XP_006230926.1  spindlin interactor and repressor of chromatin-binding protein isoform X2

      UniProtKB/TrEMBL
      A0A0G2KB48

    2. XM_039084096.2 → XP_038940024.1  spindlin interactor and repressor of chromatin-binding protein isoform X1

      UniProtKB/TrEMBL
      A6HZP6, D4AED1
      Related
      ENSRNOP00000029940.6, ENSRNOT00000034477.8
      Conserved Domains (1) summary
      pfam18658
      Location:36 → 100
      zf-C2H2_12; Zinc-finger C2H2-type

    RNA

    1. XR_350851.5 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001134575.1: Suppressed sequence

      Description
      NM_001134575.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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