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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 8-Feb-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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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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