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    Smpd4 sphingomyelin phosphodiesterase 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 303790, updated on 9-Dec-2024

    Summary

    Official Symbol
    Smpd4provided by RGD
    Official Full Name
    sphingomyelin phosphodiesterase 4provided by RGD
    Primary source
    RGD:1310674
    See related
    EnsemblRapid:ENSRNOG00000001875 AllianceGenome:RGD:1310674
    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
    RGD1310674
    Summary
    Predicted to enable sphingomyelin phosphodiesterase D activity and sphingomyelin phosphodiesterase activity. Predicted to be involved in several processes, including cellular response to tumor necrosis factor; ceramide biosynthetic process; and phospholipid catabolic process. Predicted to act upstream of or within in utero embryonic development. Predicted to be located in several cellular components, including nuclear outer membrane; sarcolemma; and trans-Golgi network. Orthologous to human SMPD4 (sphingomyelin phosphodiesterase 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 69.7), Testes (RPKM 65.3) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Smpd4 in Genome Data Viewer
    Location:
    11q23
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (96866805..96890520, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (83362534..83386257, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (87522971..87546687)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene U6 spliceosomal RNA Neighboring gene coiled-coil domain containing 74A Neighboring gene late endosomal/lysosomal adaptor, MAPK and MTOR activator 2, pseudogene 2 Neighboring gene uncharacterized LOC108352364 Neighboring gene solute carrier family 7, member 4

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Gene Ontology Provided by RGD

    Component Evidence Code Pubs
    located_in Golgi apparatus  
    located_in endoplasmic reticulum  
    located_in nuclear envelope  
    located_in nuclear outer membrane  
    located_in sarcolemma  
    located_in trans-Golgi network  

    General protein information

    Preferred Names
    sphingomyelin phosphodiesterase 4
    Names
    sphingomyelin phosphodiesterase 4, neutral membrane
    NP_001161278.2

    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_001167806.2NP_001161278.2  sphingomyelin phosphodiesterase 4

      See identical proteins and their annotated locations for NP_001161278.2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A6JSK9, F1MAK9
      Related
      ENSRNOP00000096822.1, ENSRNOT00000107761.2
      Conserved Domains (1) summary
      pfam14724
      Location:8768
      mit_SMPDase; Mitochondrial-associated sphingomyelin phosphodiesterase

    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_086029.1 Reference GRCr8

      Range
      96866805..96890520 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

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