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

Gene ID: 414784, updated on 27-Nov-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
EnsemblRapid:ENSRNOG00000042905 EnsemblRapid:ENSRNOG00000071221 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 located in lumenal side of endoplasmic reticulum membrane and phagocytic vesicle membrane. Predicted to be active in external side of plasma membrane and extracellular space. [provided by Alliance of Genome Resources, Nov 2024]
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
part_of MHC class I protein complex IEA
Inferred from Electronic Annotation
more info
  
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
    ENSRNOP00000098026.2, ENSRNOT00000120336.2
    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

    Related
    ENSRNOP00000098389.2, ENSRNOT00000120766.2

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

    Related
    ENSRNOP00000098388.2, ENSRNOT00000120765.2

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

    Related
    ENSRNOP00000043387.4, ENSRNOT00000047439.8

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

    UniProtKB/TrEMBL
    Q6MG03
    Related
    ENSRNOP00000098390.2, ENSRNOT00000120767.2

  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

    Related
    ENSRNOP00000098028.2, ENSRNOT00000120338.2

  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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