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    RT1-T24-4 RT1 class I, locus T24, gene 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 414784, updated on 3-Apr-2024

    Summary

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    Official Symbol
    RT1-T24-4provided by RGD
    Official Full Name
    RT1 class I, locus T24, gene 4provided by RGD
    Primary source
    RGD:1598233
    See related
    Ensembl:ENSRNOG00000042905 AllianceGenome:RGD:1598233
    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
    H2-T24; RT1-149
    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. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Lung (RPKM 1530.6), Spleen (RPKM 1046.9) and 9 other tissues See more
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    Genomic context

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    See RT1-T24-4 in Genome Data Viewer
    Location:
    20p12
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (2689329..2749848)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (2684515..2747878)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (3189457..3197457)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134483846 Neighboring gene RT1 class Ib, locus N3 Neighboring gene RT1 class Ib, locus S3 Neighboring gene class I gene fragment 2361 Neighboring gene uncharacterized LOC120098968 Neighboring gene ribosomal protein L41, pseudogene 1 Neighboring gene RT1 class I, locus T24, gene 3 Neighboring gene class I gene fragment 2331 Neighboring gene RT1 class I, locus T24, gene 2 Neighboring gene class I gene fragment 2310 Neighboring gene uncharacterized LOC134483847

    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
    • 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. Nucleotide sequence and structural analysis of the rat RT1.Eu and RT1.Aw3l genes, and of genes related to RT1.O and RT1.C. Salgar SK, et al. Immunogenetics, 1995. PMID 7672818
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    3. 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

    Clone Names

    • MGC112931

    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
    		  
    located_in lumenal side of endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in phagocytic vesicle membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    RT1 class I, locus T24, gene 4
    Names
    MHC class I RT1.O type 149 processed pseudogene
    histocompatibility 2, T region locus 24

    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_001008826.3 → NP_001008826.2  RT1 class I, locus T24, gene 4

      See identical proteins and their annotated locations for NP_001008826.2

      Status: VALIDATED

      Source sequence(s)
      BC098866, FM045430
      UniProtKB/TrEMBL
      A6KT56, Q4G002
      Related
      ENSRNOP00000043387.3, ENSRNOT00000047439.6
      Conserved Domains (3) summary
      cd07698
      Location:208 → 300
      IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain
      pfam06623
      Location:346 → 371
      MHC_I_C; MHC_I C-terminus
      cl08246
      Location:19 → 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
      2689329..2749848
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063279390.1 → XP_063135460.1  RT1 class I, locus T24, gene 4 isoform X2

    2. XM_063279389.1 → XP_063135459.1  RT1 class I, locus T24, gene 4 isoform X1

    3. XM_063279393.1 → XP_063135463.1  RT1 class I, locus T24, gene 4 isoform X5

    4. XM_063279395.1 → XP_063135465.1  RT1 class I, locus T24, gene 4 isoform X7

      UniProtKB/TrEMBL
      Q6MG03

    5. XM_063279392.1 → XP_063135462.1  RT1 class I, locus T24, gene 4 isoform X4

    6. XM_063279397.1 → XP_063135467.1  RT1 class I, locus T24, gene 4 isoform X9

    7. XM_063279398.1 → XP_063135468.1  RT1 class I, locus T24, gene 4 isoform X10

    8. XM_063279396.1 → XP_063135466.1  RT1 class I, locus T24, gene 4 isoform X8

    9. XM_063279391.1 → XP_063135461.1  RT1 class I, locus T24, gene 4 isoform X3

      UniProtKB/TrEMBL
      A0A0G2KA93

    10. XM_063279394.1 → XP_063135464.1  RT1 class I, locus T24, gene 4 isoform X6

      UniProtKB/TrEMBL
      F1LXB3

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NR_002597.1: Suppressed sequence

      Description
      NR_002597.1: This RefSeq was removed because currently there is insufficient support for the transcript.
    Nucleotide Protein Strain
    Heading Accession and Version

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