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    Skint5 selection and upkeep of intraepithelial T cells 5 [ Mus musculus (house mouse) ]

    Gene ID: 242627, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Skint5provided by MGI
    Official Full Name
    selection and upkeep of intraepithelial T cells 5provided by MGI
    Primary source
    MGI:MGI:3650151
    See related
    Ensembl:ENSMUSG00000078598 AllianceGenome:MGI:3650151
    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
    Skint-5
    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 active in external side of plasma membrane. Is expressed in several structures, including genitourinary system; gut; integumental system; liver; and lung. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Low expression observed in reference dataset See more
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    Genomic context

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    See Skint5 in Genome Data Viewer
    Location:
    4 D1; 4 51.53 cM
    Exon count:
    59
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (113335088..113856700, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (113477891..113999503, complement)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene selection and upkeep of intraepithelial T cells 6 Neighboring gene multiple inositol polyphosphate histidine phosphatase 1 pseudogene Neighboring gene predicted gene 12813 Neighboring gene STARR-seq mESC enhancer starr_11101 Neighboring gene selection and upkeep of intraepithelial T cells 3 pseudogene Neighboring gene selection and upkeep of intraepithelial T cells 11 Neighboring gene TRAF3 interacting protein 2 pseudogene

    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. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article
    3. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    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 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_001167876.1 → NP_001161348.1  selection and upkeep of intraepithelial T-cells protein 5 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001161348.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      EU099301
      UniProtKB/Swiss-Prot
      A7XUY5, A7XUY9, A7XUZ2
      Related
      ENSMUSP00000132470.2, ENSMUST00000169631.8
      Conserved Domains (4) summary
      cd05713
      Location:43 → 141
      Ig_MOG_like; Immunoglobulin (Ig)-like domain of myelin oligodendrocyte glycoprotein (MOG)
      smart00410
      Location:35 → 140
      IG_like; Immunoglobulin like
      pfam07539
      Location:1027 → 1178
      DRIM; Down-regulated in metastasis
      cl00452
      Location:1128 → 1238
      AAK; Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that ...

    2. NM_001167878.1 → NP_001161350.1  selection and upkeep of intraepithelial T-cells protein 5 isoform 2 precursor

      See identical proteins and their annotated locations for NP_001161350.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon, compared to variant 1, resulting in a shorter protein (isoform 2), compared to isoform 1.
      Source sequence(s)
      EU099302
      UniProtKB/Swiss-Prot
      A7XUY5
      Related
      ENSMUSP00000129582.2, ENSMUST00000170105.8
      Conserved Domains (4) summary
      cd05713
      Location:43 → 141
      Ig_MOG_like; Immunoglobulin (Ig)-like domain of myelin oligodendrocyte glycoprotein (MOG)
      smart00410
      Location:35 → 140
      IG_like; Immunoglobulin like
      pfam07539
      Location:1027 → 1178
      DRIM; Down-regulated in metastasis
      cl00452
      Location:1128 → 1238
      AAK; Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that ...

    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
      113335088..113856700 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A7XUY5.1 GenPept UniProtKB/Swiss-Prot:A7XUY5

    Gene LinkOut

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