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    R3hcc1l R3H domain and coiled-coil containing 1-like [ Rattus norvegicus (Norway rat) ]

    Gene ID: 293953, updated on 2-Nov-2024

    Summary

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    Official Symbol
    R3hcc1lprovided by RGD
    Official Full Name
    R3H domain and coiled-coil containing 1-likeprovided by RGD
    Primary source
    RGD:1307934
    See related
    EnsemblRapid:ENSRNOG00000051256 AllianceGenome:RGD:1307934
    Gene type
    protein coding
    RefSeq status
    INFERRED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1307934
    Summary
    Predicted to be part of exon-exon junction complex. Orthologous to human R3HCC1L (R3H domain and coiled-coil containing 1 like). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 80.5), Kidney (RPKM 68.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See R3hcc1l in Genome Data Viewer
    Location:
    1q54
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (251266438..251344495)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (241317199..241395240)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (261753295..261833437)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene microRNA 3085 Neighboring gene cartilage acidic protein 1 Neighboring gene uncharacterized LOC120100039 Neighboring gene lysyl oxidase-like 4 Neighboring gene uncharacterized LOC134484050

    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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    Related articles in PubMed

    1. SMG6 interacts with the exon junction complex via two conserved EJC-binding motifs (EBMs) required for nonsense-mediated mRNA decay. Kashima I, et al. Genes Dev, 2010 Nov 1. PMID 20930030, 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

    Component Evidence Code Pubs
    part_of exon-exon junction complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    coiled-coil domain-containing protein R3HCC1L

    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_001427847.1 → NP_001414776.1  coiled-coil domain-containing protein R3HCC1L

      Status: INFERRED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A0A0G2JZM0
      Related
      ENSRNOP00000071099.2, ENSRNOT00000081765.3

    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
      251266438..251344495
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039101422.2 → XP_038957350.1  coiled-coil domain-containing protein R3HCC1L isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZR31
      Conserved Domains (1) summary
      cl17169
      Location:663 → 727
      RRM_SF; RNA recognition motif (RRM) superfamily

    RNA

    1. XR_010066339.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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    Chemical Information
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    Research Materials