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    Xntrpc Xndc1-transient receptor potential cation channel, subfamily C, member 2 readthrough [ Mus musculus (house mouse) ]

    Gene ID: 102443351, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Xntrpcprovided by MGI
    Official Full Name
    Xndc1-transient receptor potential cation channel, subfamily C, member 2 readthroughprovided by MGI
    Primary source
    MGI:MGI:5546370
    See related
    Ensembl:ENSMUSG00000070425 AllianceGenome:MGI:5546370
    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
    Xndr-trpc2
    Summary
    This locus represents naturally occurring readthrough transcription between the neighboring Xndr (XRCC1 N-terminal domain-related) and Trpc2 (transient receptor potential cation channel, subfamily C, member 2) genes on chromosome 7. Readthrough transcripts include one that encodes a fusion protein that shares sequence identity with each individual gene product and one that is a candidate for nonsense-mediated mRNA decay (NMD), and thus is unlikely to produce a protein product. [provided by RefSeq, Nov 2013]
    Expression
    Ubiquitous expression in limb E14.5 (RPKM 9.1), testis adult (RPKM 8.1) and 28 other tissues See more
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    Genomic context

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    See Xntrpc in Genome Data Viewer
    Location:
    7 E2; 7
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (101714698..101746071)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (102065491..102096864)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene nuclear mitotic apparatus protein 1 Neighboring gene predicted gene, 39061 Neighboring gene interleukin 18 binding protein Neighboring gene ring finger protein 121 Neighboring gene STARR-seq mESC enhancer starr_19703 Neighboring gene Xrcc1 N-terminal domain containing 1 Neighboring gene transient receptor potential cation channel, subfamily C, member 2 Neighboring gene ADP-ribosyltransferase 5 Neighboring gene ADP-ribosyltransferase 1 Neighboring gene cholinergic receptor, nicotinic, alpha polypeptide 10

    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. Identification of two distinct genes at the vertebrate TRPC2 locus and their characterisation in a marsupial and a monotreme. Frankenberg S, et al. BMC Mol Biol, 2011 Aug 19. PMID 21854574, 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 (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Readthrough Xntrpc

    Included genes: Trpc2, Xndc1

    Homology

    General protein information

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    Preferred Names
    Xndr-Trpc2 readthrough

    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_011644.3 → NP_035774.2  Xndr-Trpc2 readthrough

      See identical proteins and their annotated locations for NP_035774.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes an Xndr-Trpc2 protein.
      Source sequence(s)
      AC132297, AC150275
      UniProtKB/Swiss-Prot
      Q9ES59, Q9ES60, Q9R243, Q9R244
      UniProtKB/TrEMBL
      F8VQM8
      Related
      ENSMUSP00000081903.4, ENSMUST00000084843.10
      Conserved Domains (5) summary
      cd00204
      Location:437 → 546
      ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
      TIGR00870
      Location:397 → 1135
      trp; transient-receptor-potential calcium channel protein
      pfam01834
      Location:1 → 149
      XRCC1_N; XRCC1 N terminal domain
      pfam08344
      Location:557 → 616
      TRP_2; Transient receptor ion channel II
      sd00045
      Location:467 → 512
      ANK; ANK repeat [structural motif]

    RNA

    1. NR_104582.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has multiple differences compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC150275, AK040538

    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_000073.7 Reference GRCm39 C57BL/6J

      Range
      101714698..101746071
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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