U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    CD1.1 CD1 antigen [ Sus scrofa (pig) ]

    Gene ID: 396785, updated on 16-Nov-2023

    Summary

    Go to the top of the page Help
    Gene symbol
    CD1.1
    Gene description
    CD1 antigen
    See related
    Ensembl:ENSSSCG00000025644
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Sus scrofa
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
    Also known as
    CD1A; cd1a1
    Expression
    Broad expression in spleen (RPKM 5.3), subcutaneous adipose (RPKM 1.4) and 6 other tissues See more
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See CD1.1 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    106 current Sscrofa11.1 (GCF_000003025.6) 4 NC_010446.5 (91854055..91863875, complement)
    105 previous assembly Sscrofa10.2 (GCF_000003025.5) 4 NC_010446.4 (99905379..99909248)

    Chromosome 4 - NC_010446.5Genomic Context describing neighboring genes Neighboring gene T-cell surface glycoprotein CD1c-like Neighboring gene vacuolar protein sorting-associated protein 4A-like Neighboring gene olfactory receptor 10R2 Neighboring gene olfactory receptor 10K1-like

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Transcriptome data used for gene annotation Transcriptome data used for gene annotation
    • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
    • BioProject: PRJNA311523
    • Publication: PMID 27646534
    • Analysis date: Thu Dec 14 17:10:49 2017

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Analysis of the genomic structure of the porcine CD1 gene cluster. Eguchi-Ogawa T, et al. Genomics, 2007 Feb. PMID 17112699
    2. PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10 147 porcine full-length cDNA sequences. Uenishi H, et al. Nucleic Acids Res, 2007 Jan. PMID 17145712, Free PMC Article
    3. PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries. Uenishi H, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681463, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables endogenous lipid antigen binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables exogenous lipid antigen binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables lipopeptide binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in antigen processing and presentation, endogenous lipid antigen via MHC class Ib IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in antigen processing and presentation, exogenous lipid antigen via MHC class Ib IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in immune response IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in positive regulation of T cell mediated cytotoxicity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in external side of plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in extracellular space IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    T-cell surface glycoprotein CD1a
    Names
    CD1A1 antigen

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_213831.1 → NP_998996.1  T-cell surface glycoprotein CD1a precursor

      See identical proteins and their annotated locations for NP_998996.1

      Status: PROVISIONAL

      Source sequence(s)
      AF059492
      UniProtKB/Swiss-Prot
      Q9XS72
      UniProtKB/TrEMBL
      A0A4X1VW12, A0A8D2CHW6, A0ZQ20
      Conserved Domains (2) summary
      cd07698
      Location:203 → 296
      IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain
      pfam16497
      Location:19 → 198
      MHC_I_3; MHC-I family domain

    RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference Sscrofa11.1 Primary Assembly

    Genomic

    1. NC_010446.5 Reference Sscrofa11.1 Primary Assembly

      Range
      91854055..91863875 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005663230.3 → XP_005663287.1  T-cell surface glycoprotein CD1a isoform X2

      UniProtKB/TrEMBL
      A0A8D0LER5
      Conserved Domains (2) summary
      cd07698
      Location:203 → 296
      IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain
      pfam16497
      Location:19 → 198
      MHC_I_3; MHC-I family domain

    2. XM_005663229.3 → XP_005663286.1  T-cell surface glycoprotein CD1a isoform X1

      See identical proteins and their annotated locations for XP_005663286.1

      UniProtKB/TrEMBL
      A0A4X1VW12, A0A8D1AIW7, A0A8D2CHW6, A0ZPR3, A0ZQ20
      Related
      ENSSSCP00000027437.1, ENSSSCT00000022296.3
      Conserved Domains (1) summary
      cd07698
      Location:203 → 296
      IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9XS72.1 GenPept UniProtKB/Swiss-Prot:Q9XS72

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.