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    Skint11 selection and upkeep of intraepithelial T cells 11 [ Mus musculus (house mouse) ]

    Gene ID: 230623, updated on 8-Feb-2024

    Summary

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    Official Symbol
    Skint11provided by MGI
    Official Full Name
    selection and upkeep of intraepithelial T cells 11provided by MGI
    Primary source
    MGI:MGI:2685415
    See related
    Ensembl:ENSMUSG00000057977 AllianceGenome:MGI:2685415
    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
    Gm569; A630098G03Rik
    Summary
    Predicted to enable signaling receptor binding activity. Predicted to be involved in T cell receptor signaling pathway and regulation of cytokine production. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in external side of plasma membrane. Is expressed in skin and thymus. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Low expression observed in reference dataset See more
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    Genomic context

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    See Skint11 in Genome Data Viewer
    Location:
    4 D1; 4 51.53 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (114020581..114102225)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (114163384..114245028)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene selection and upkeep of intraepithelial T cells 5 Neighboring gene STARR-seq mESC enhancer starr_11101 Neighboring gene selection and upkeep of intraepithelial T cells 3 pseudogene Neighboring gene STARR-seq mESC enhancer starr_11102 Neighboring gene TRAF3 interacting protein 2 pseudogene Neighboring gene predicted gene, 40228 Neighboring gene TraB domain containing 2B Neighboring gene predicted gene, 33710

    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. Skint1, the prototype of a newly identified immunoglobulin superfamily gene cluster, positively selects epidermal gammadelta T cells. Boyden LM, et al. Nat Genet, 2008 May. PMID 18408721, 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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    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables signaling receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in T cell receptor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of cytokine production IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in external side of plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    selection and upkeep of intraepithelial T-cells protein 11
    Names
    skint 11

    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_001166027.1 → NP_001159499.1  selection and upkeep of intraepithelial T-cells protein 11 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001159499.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK042513, EU099309
      Consensus CDS
      CCDS51270.1
      UniProtKB/Swiss-Prot
      A7XV14
      Related
      ENSMUSP00000127138.2, ENSMUST00000164297.8
      Conserved Domains (1) summary
      pfam12725
      Location:188 → 312
      DUF3810; Protein of unknown function (DUF3810)

    2. NM_177669.4 → NP_808337.2  selection and upkeep of intraepithelial T-cells protein 11 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks three alternate in-frame exons in the coding region, compared to variant 1, resulting in an isoform (2) that is shorter than isoform 1.
      Source sequence(s)
      AK042513, AL627257
      Consensus CDS
      CCDS51271.1
      UniProtKB/TrEMBL
      A2A9I2, Q8C9B4
      Related
      ENSMUSP00000078836.4, ENSMUST00000079915.10

    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_000070.7 Reference GRCm39 C57BL/6J

      Range
      114020581..114102225
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006503004.1 → XP_006503067.1  selection and upkeep of intraepithelial T-cells protein 11 isoform X1

      Conserved Domains (1) summary
      pfam12725
      Location:188 → 301
      DUF3810; Protein of unknown function (DUF3810)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A7XV14.1 GenPept UniProtKB/Swiss-Prot:A7XV14

    Gene LinkOut

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