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    A530064D06Rik RIKEN cDNA A530064D06 gene [ Mus musculus (house mouse) ]

    Gene ID: 328830, updated on 27-Nov-2024

    Summary

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    Official Symbol
    A530064D06Rikprovided by MGI
    Official Full Name
    RIKEN cDNA A530064D06 geneprovided by MGI
    Primary source
    MGI:MGI:2443476
    See related
    Ensembl:ENSMUSG00000043939
    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
    Trem4; pdctrem
    Expression
    Broad expression in liver E18 (RPKM 1.3), spleen adult (RPKM 1.0) and 15 other tissues See more
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    Genomic context

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    See A530064D06Rik in Genome Data Viewer
    Location:
    17 C; 17 23.99 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (48459064..48474425, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (48151896..48167257, complement)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA A730006G06 gene Neighboring gene RIKEN cDNA 1700067P10 gene Neighboring gene RIKEN cDNA 9830107B12 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:48237942-48238143 Neighboring gene STARR-positive B cell enhancer ABC_E9956 Neighboring gene STARR-seq mESC enhancer starr_42745 Neighboring gene STARR-seq mESC enhancer starr_42746 Neighboring gene STARR-seq mESC enhancer starr_42747 Neighboring gene predicted gene, 52308 Neighboring gene triggering receptor expressed on myeloid cells 1 Neighboring gene Ewing sarcoma breakpoint region 1 pseudogene Neighboring gene predicted gene, 52307 Neighboring gene triggering receptor expressed on myeloid cells 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. PDC-TREM, a plasmacytoid dendritic cell-specific receptor, is responsible for augmented production of type I interferon. Watarai H, et al. Proc Natl Acad Sci U S A, 2008 Feb 26. PMID 18287072, Free PMC Article
    2. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
    3. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    4. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
    5. RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer. Shibata K, et al. Genome Res, 2000 Nov. PMID 11076861, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. PDC-TREM is responsible for IFN-alpha production in plasmacytoid dendritic cells.
      Title: PDC-TREM, a plasmacytoid dendritic cell-specific receptor, is responsible for augmented production of type I interferon.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables signaling receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cell surface IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    triggering receptor expressed in myeloid cells 4
    Names
    plasmacytoid dendritic cell-specific receptor
    triggering receptor expressed on myeloid cells 4

    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_001113556.1 → NP_001107028.1  triggering receptor expressed in myeloid cells 4 isoform b precursor

      See identical proteins and their annotated locations for NP_001107028.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an internal coding exon which results in a frameshift, compared to variant 1. The resulting isoform (b) is shorter and has a distinct C-terminus, compared to isoform a.
      Source sequence(s)
      AK080114, AK171433, BY194994
      Consensus CDS
      CCDS50138.1
      UniProtKB/TrEMBL
      Q8C239, Q8C254
      Related
      ENSMUSP00000027764.9, ENSMUST00000027764.10
      Conserved Domains (2) summary
      cd05716
      Location:28 → 105
      Ig_pIgR; Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR)
      smart00410
      Location:26 → 121
      IG_like; Immunoglobulin like

    2. NM_178796.6 → NP_848911.2  triggering receptor expressed in myeloid cells 4 isoform a precursor

      See identical proteins and their annotated locations for NP_848911.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (a).
      Source sequence(s)
      AK080114, AK171433, BY194994
      Consensus CDS
      CCDS28859.1
      UniProtKB/TrEMBL
      Q8BNV8
      Related
      ENSMUSP00000055935.7, ENSMUST00000053612.14
      Conserved Domains (2) summary
      cd05716
      Location:28 → 105
      Ig_pIgR; Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR)
      smart00410
      Location:26 → 111
      IG_like; Immunoglobulin like

    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_000083.7 Reference GRCm39 C57BL/6J

      Range
      48459064..48474425 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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