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    Smyd5 SET and MYND domain containing 5 [ Mus musculus (house mouse) ]

    Gene ID: 232187, updated on 5-Mar-2024

    Summary

    Official Symbol
    Smyd5provided by MGI
    Official Full Name
    SET and MYND domain containing 5provided by MGI
    Primary source
    MGI:MGI:108048
    See related
    Ensembl:ENSMUSG00000033706 AllianceGenome:MGI:108048
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Rrg1; Rai15; NN8-4AG
    Summary
    Enables histone methyltransferase activity (H4-K20 specific). Involved in several processes, including histone H4-K20 trimethylation; negative regulation of gene expression, epigenetic; and negative regulation of transposition. Is expressed in several structures, including alimentary system; brain; heart; skeletal musculature; and spleen. Orthologous to human SMYD5 (SMYD family member 5). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in CNS E18 (RPKM 20.8), limb E14.5 (RPKM 19.3) and 28 other tissues See more
    Orthologs
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    Genomic context

    Location:
    6 C3; 6 37.44 cM
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (85408958..85423411)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (85431976..85446429)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 4933423K11 gene Neighboring gene notochord homeobox Neighboring gene protease-associated domain containing 1 Neighboring gene chaperonin containing TCP1 subunit 7 Neighboring gene F-box protein 41

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (4)  1 citation
    • Endonuclease-mediated (2) 

    General gene information

    Markers

    Clone Names

    • MGC29044

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables histone H4K20 methyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables histone H4K20 methyltransferase activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables histone H4K20 trimethyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
     

    General protein information

    Preferred Names
    histone-lysine N-trimethyltransferase SMYD5
    Names
    SET and MYND domain-containing protein 5
    [histone H4]-lysine20 N-trimethyltransferase SMYD5
    retinoic acid induced 15
    retinoic acid responsive gene 1
    retinoic acid-induced protein 15
    NP_659167.2

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_144918.2NP_659167.2  histone-lysine N-trimethyltransferase SMYD5

      See identical proteins and their annotated locations for NP_659167.2

      Status: VALIDATED

      Source sequence(s)
      AK162926, BE951851, BU847995
      Consensus CDS
      CCDS51827.1
      UniProtKB/Swiss-Prot
      Q3TRB2, Q3TYX3, Q91YL6
      Related
      ENSMUSP00000048537.8, ENSMUST00000045693.8
      Conserved Domains (1) summary
      smart00317
      Location:297350
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000072.7 Reference GRCm39 C57BL/6J

      Range
      85408958..85423411
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)