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    9830107B12Rik RIKEN cDNA 9830107B12 gene [ Mus musculus (house mouse) ]

    Gene ID: 328829, updated on 27-Nov-2024

    Summary

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    Official Symbol
    9830107B12Rikprovided by MGI
    Official Full Name
    RIKEN cDNA 9830107B12 geneprovided by MGI
    Primary source
    MGI:MGI:3608415
    See related
    Ensembl:ENSMUSG00000073386
    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
    Trem5
    Expression
    Low expression observed in reference dataset See more
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    Genomic context

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    See 9830107B12Rik in Genome Data Viewer
    Location:
    17 C; 17 23.99 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (48410333..48453478, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (48099816..48146307, complement)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 30068 Neighboring gene RIKEN cDNA A730006G06 gene Neighboring gene predicted gene, 57493 Neighboring gene heat shock protein 1 (chaperonin) pseudogene 22 Neighboring gene RIKEN cDNA 1700067P10 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 RIKEN cDNA A530064D06 gene Neighboring gene STARR-seq mESC enhancer starr_42746 Neighboring gene STARR-seq mESC enhancer starr_42747 Neighboring gene predicted gene, 52308 Neighboring gene Ewing sarcoma breakpoint region 1 pseudogene Neighboring gene triggering receptor expressed on myeloid cells 1

    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. Spatiotemporal regulation of GLI target genes in the mammalian limb bud. Lewandowski JP, et al. Dev Biol, 2015 Oct 1. PMID 26238476, Free PMC Article
    2. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    3. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
    4. 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
    5. Normalization and subtraction of cap-trapper-selected cDNAs to prepare full-length cDNA libraries for rapid discovery of new genes. Carninci P, et al. Genome Res, 2000 Oct. PMID 11042159, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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
    uncharacterized protein LOC328829
    Names
    triggering receptor expressed in myeloid cells 5
    triggering receptor expressed on myeloid cells 5

    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_001177896.1 → NP_001171367.1  uncharacterized protein LOC328829 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001171367.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AK079398, BY207169, EF646801
      Consensus CDS
      CCDS89112.1
      UniProtKB/TrEMBL
      A9Q7H1
      Related
      ENSMUSP00000156705.2, ENSMUST00000233337.2
      Conserved Domains (1) summary
      cd05716
      Location:28 → 105
      Ig_pIgR_like; Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar domains

    2. NM_001177897.1 → NP_001171368.1  uncharacterized protein LOC328829 isoform 3 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. This results in a shorter protein (isoform 3), compared to isoform 1.
      Source sequence(s)
      AK079398, AK137568, BY207169
      Consensus CDS
      CCDS89111.1
      UniProtKB/TrEMBL
      A0A3B2W4G3, Q3UV63
      Related
      ENSMUSP00000156923.2, ENSMUST00000233614.2
      Conserved Domains (2) summary
      smart00410
      Location:21 → 72
      IG_like; Immunoglobulin like
      pfam07686
      Location:20 → 72
      V-set; Immunoglobulin V-set domain

    3. NM_177824.4 → NP_808492.1  uncharacterized protein LOC328829 isoform 2 precursor

      See identical proteins and their annotated locations for NP_808492.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon in the coding region, which results in a frameshift, compared to variant 1. The resulting protein (isoform 2) has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AK079398, BY207169, MF597745
      Consensus CDS
      CCDS37645.1
      UniProtKB/TrEMBL
      D3Z5D6
      Related
      ENSMUSP00000070138.8, ENSMUST00000063481.9
      Conserved Domains (1) summary
      cd05716
      Location:28 → 105
      Ig_pIgR_like; Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar domains

    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
      48410333..48453478 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017317514.1 → XP_017173003.1  uncharacterized protein LOC328829 isoform X2

      UniProtKB/TrEMBL
      D3Z5D6
      Conserved Domains (1) summary
      cd05716
      Location:28 → 105
      Ig_pIgR_like; Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar domains

    2. XM_017317512.1 → XP_017173001.1  uncharacterized protein LOC328829 isoform X1

      UniProtKB/TrEMBL
      A9Q7H1
      Conserved Domains (1) summary
      cd05716
      Location:28 → 105
      Ig_pIgR_like; Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar domains

    3. XM_017317513.1 → XP_017173002.1  uncharacterized protein LOC328829 isoform X1

      UniProtKB/TrEMBL
      A9Q7H1
      Conserved Domains (1) summary
      cd05716
      Location:28 → 105
      Ig_pIgR_like; Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar domains
    Nucleotide Protein Strain
    Heading Accession and Version

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