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    Smyd4 SET and MYND domain containing 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 287525, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Smyd4provided by RGD
    Official Full Name
    SET and MYND domain containing 4provided by RGD
    Primary source
    RGD:1307369
    See related
    EnsemblRapid:ENSRNOG00000026783 AllianceGenome:RGD:1307369
    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
    Summary
    Predicted to enable histone deacetylase binding activity. Predicted to be involved in heart development. Predicted to be active in cytoplasm and nucleus. Orthologous to human SMYD4 (SET and MYND domain containing 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Heart (RPKM 42.5), Adrenal (RPKM 34.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Smyd4 in Genome Data Viewer
    Location:
    10q24
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (60698376..60744693)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (60200067..60246387)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (62191669..62237939)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene reticulon 4 receptor-like 1 Neighboring gene ATP synthase subunit g, mitochondrial-like Neighboring gene replication protein A1 Neighboring gene F-box protein 5, pseudogene 1 Neighboring gene ribosomal protein L37, pseudogene 4 Neighboring gene serpin family F member 1 Neighboring gene serpin family F member 2

    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. 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

    Function Evidence Code Pubs
    enables histone deacetylase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in heart development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in heart development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in methylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    SET and MYND domain-containing protein 4
    NP_001099280.1
    XP_063124747.1

    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_001105810.1 → NP_001099280.1  SET and MYND domain-containing protein 4

      See identical proteins and their annotated locations for NP_001099280.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473948
      UniProtKB/TrEMBL
      A6HGQ1, D4AEC7
      Related
      ENSRNOP00000029945.4, ENSRNOT00000029866.7
      Conserved Domains (5) summary
      sd00006
      Location:68 → 96
      TPR; TPR repeat [structural motif]
      pfam00856
      Location:526 → 572
      SET; SET domain
      pfam01753
      Location:296 → 335
      zf-MYND; MYND finger
      pfam13414
      Location:68 → 132
      TPR_11; TPR repeat
      pfam13424
      Location:692 → 748
      TPR_12; Tetratricopeptide repeat

    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_086028.1 Reference GRCr8

      Range
      60698376..60744693
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063268677.1 → XP_063124747.1  SET and MYND domain-containing protein 4 isoform X1

      UniProtKB/TrEMBL
      A6HGQ1, D4AEC7

    RNA

    1. XR_005489742.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
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