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    RT1-CE3 RT1 class I, locus CE3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 414793, updated on 17-Aug-2024

    Summary

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    Official Symbol
    RT1-CE3provided by RGD
    Official Full Name
    RT1 class I, locus CE3provided by RGD
    Primary source
    RGD:1598231
    See related
    AllianceGenome:RGD:1598231
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RT1-C/E3
    Summary
    Predicted to enable peptide antigen binding activity and signaling receptor binding activity. Predicted to be involved in several processes, including antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-independent; antigen processing and presentation of endogenous peptide antigen via MHC class Ib; and positive regulation of T cell mediated cytotoxicity. Predicted to be integral component of membrane. Predicted to be active in external side of plasma membrane and extracellular space. Human ortholog(s) of this gene implicated in several diseases, including asthma (multiple); autoimmune disease (multiple); eye disease (multiple); human immunodeficiency virus infectious disease (multiple); and inner ear disease (multiple). Orthologous to several human genes including HLA-E (major histocompatibility complex, class I, E); HLA-F (major histocompatibility complex, class I, F); and HLA-G (major histocompatibility complex, class I, G). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 1127.8), Lung (RPKM 1014.5) and 9 other tissues See more
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    Genomic context

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    See RT1-CE3 in Genome Data Viewer
    Location:
    20p12
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (3521323..3525218, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (3516647..3520938, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (4918047..4943603, complement)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene RT1 class I, locus CE4 Neighboring gene uncharacterized LOC134483853 Neighboring gene Cdk2ap1-ps3 pseudogene Neighboring gene LOC224733l-3 pseudogene Neighboring gene uncharacterized LOC134483855 Neighboring gene Cdk2ap1-ps2 pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Identification of MHC Class Ib Ligands for Stimulatory and Inhibitory Ly49 Receptors and Induction of Potent NK Cell Alloresponses in Rats. Dai KZ, et al. J Immunol, 2018 Apr 15. PMID 29531166, Free PMC Article
    2. 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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables peptide antigen binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables signaling receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-independent IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in antigen processing and presentation of endogenous peptide antigen via MHC class Ib IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of T cell mediated cytotoxicity 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
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    RT1 class I, locus CE3
    Names
    MHC class I protein
    MHC class I protein-like

    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_001008841.2 → NP_001008841.1  RT1 class I, locus CE3 precursor

      See identical proteins and their annotated locations for NP_001008841.1

      Status: VALIDATED

      Source sequence(s)
      BX883046
      UniProtKB/TrEMBL
      F1LQG7, Q6MG38, Q861Q2
      Conserved Domains (2) summary
      cd07698
      Location:207 → 299
      IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain
      pfam00129
      Location:25 → 203
      MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086038.1 Reference GRCr8

      Range
      3521323..3525218 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039098965.2 → XP_038954893.1  RT1 class I, locus CE3 isoform X2

      UniProtKB/TrEMBL
      A0A2P1NRX8, Q861Q2
      Conserved Domains (3) summary
      pfam00129
      Location:25 → 203
      MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
      cd00096
      Location:208 → 216
      Ig; Ig strand A [structural motif]
      cl11960
      Location:205 → 298
      Ig; Immunoglobulin domain

    2. XM_039098964.2 → XP_038954892.1  RT1 class I, locus CE3 isoform X1

      UniProtKB/TrEMBL
      Q861Q2
      Conserved Domains (3) summary
      pfam00129
      Location:25 → 203
      MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
      cd00096
      Location:208 → 216
      Ig; Ig strand A [structural motif]
      cl11960
      Location:205 → 298
      Ig; Immunoglobulin domain

    3. XM_039098967.2 → XP_038954895.1  RT1 class I, locus CE3 isoform X3

      Conserved Domains (1) summary
      cd07698
      Location:45 → 136
      IgC1_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain, alpha3 immunoglobulin domain; member of the C1-set of Ig superfamily (IgSF) domains

    4. XM_063279420.1 → XP_063135490.1  RT1 class I, locus CE3 isoform X4

    RNA

    1. XR_010060753.1 RNA Sequence

    2. XR_010060752.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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