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    Raet1d retinoic acid early transcript delta [ Mus musculus (house mouse) ]

    Gene ID: 56554, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Raet1dprovided by MGI
    Official Full Name
    retinoic acid early transcript deltaprovided by MGI
    Primary source
    MGI:MGI:1861032
    See related
    Ensembl:ENSMUSG00000078452 AllianceGenome:MGI:1861032
    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
    RAE-1delta
    Summary
    Enables natural killer cell lectin-like receptor binding activity. Acts upstream of or within natural killer cell mediated cytotoxicity. Located in external side of plasma membrane. Is expressed in embryo; liver; and spleen. Orthologous to human ULBP2 (UL16 binding protein 2); RAET1G (retinoic acid early transcript 1G); and RAET1L (retinoic acid early transcript 1L). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in liver adult (RPKM 7.1), limb E14.5 (RPKM 4.0) and 8 other tissues See more
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    Genomic context

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    See Raet1d in Genome Data Viewer
    Location:
    10 A3; 10 10.02 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (22181145..22250042)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (22361861..22374143)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 26740 Neighboring gene UL16 binding protein 1 pseudogene Neighboring gene histocompatibility 60b Neighboring gene RIKEN cDNA C920009B18 gene Neighboring gene STARR-seq mESC enhancer starr_26016 Neighboring gene STARR-seq mESC enhancer starr_26017 Neighboring gene aconitase 2, mitochondrial pseudogene Neighboring gene STARR-seq mESC enhancer starr_26018 Neighboring gene predicted gene, 34607 Neighboring gene predicted gene 10825 Neighboring gene UL16 binding protein 1 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. Tumor-derived CSF-1 induces the NKG2D ligand RAE-1δ on tumor-infiltrating macrophages. Thompson TW, et al. Elife, 2018 May 14. PMID 29757143, Free PMC Article
    2. RAE-1 expression is induced during experimental autoimmune encephalomyelitis and is correlated with microglia cell proliferation. Djelloul M, et al. Brain Behav Immun, 2016 Nov. PMID 27444966
    3. Differential susceptibility of RAE-1 isoforms to mouse cytomegalovirus. Arapovic J, et al. J Virol, 2009 Aug. PMID 19494006, Free PMC Article
    4. Endothelial cells express NKG2D ligands and desensitize antitumor NK responses. Thompson TW, et al. Elife, 2017 Dec 12. PMID 29231815, Free PMC Article
    5. Antitumor immunity. A shed NKG2D ligand that promotes natural killer cell activation and tumor rejection. Deng W, et al. Science, 2015 Apr 3. PMID 25745066, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The authors find that a soluble factor produced by tumor cells is responsible for macrophage RAE-1delta induction, and they identify tumor-derived colony-stimulating factor-1 (CSF-1) as necessary and sufficient for macrophage RAE-1delta induction in vitro and in vivo.
      Title: Tumor-derived CSF-1 induces the NKG2D ligand RAE-1δ on tumor-infiltrating macrophages.
    2. Study reports that retinoic acid early induced transcript-1-d and retinoic acid early induced transcript-1-e (Raet1) genes are induced early upon experimental autoimmune encephalomyelitis onset and reach a maximal expression at the peak of the pathology. Study also shows that macrophages as well as microglia, are cellular sources of Raet1 transcripts.
      Title: RAE-1 expression is induced during experimental autoimmune encephalomyelitis and is correlated with microglia cell proliferation.
    3. RAE1d, not Raet1c, is resistant to downregulation by mouse cytomegalovirus.
      Title: Differential susceptibility of RAE-1 isoforms to mouse cytomegalovirus.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    General gene information

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    Markers

    Clone Names

    • MGC118478

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables natural killer cell lectin-like receptor binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables natural killer cell lectin-like receptor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    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
    		  
    acts_upstream_of_or_within natural killer cell mediated cytotoxicity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of T cell mediated cytotoxicity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in external side of plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in external side of plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular space ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    retinoic acid early-inducible protein 1-delta
    Names
    RAE-1-delta
    retinoic acid early transcript 1D

    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_001429234.1 → NP_001416163.1  retinoic acid early-inducible protein 1-delta precursor

      Status: VALIDATED

      Source sequence(s)
      AC159330
      UniProtKB/Swiss-Prot
      Q3KQI0, Q9JI58

    2. NM_020030.3 → NP_064414.1  retinoic acid early-inducible protein 1-delta precursor

      See identical proteins and their annotated locations for NP_064414.1

      Status: VALIDATED

      Source sequence(s)
      AC159330
      Consensus CDS
      CCDS35866.1
      UniProtKB/Swiss-Prot
      Q3KQI0, Q9JI58
      Related
      ENSMUSP00000093471.4, ENSMUST00000095795.5
      Conserved Domains (1) summary
      cl08246
      Location:31 → 200
      MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2

    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_000076.7 Reference GRCm39 C57BL/6J

      Range
      22181145..22250042
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036155900.1 → XP_036011793.1  retinoic acid early-inducible protein 1-delta isoform X1

      UniProtKB/Swiss-Prot
      Q3KQI0, Q9JI58
      Related
      ENSMUSP00000138328.2, ENSMUST00000182677.8
      Conserved Domains (1) summary
      cl08246
      Location:31 → 200
      MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2

    2. XM_006512808.4 → XP_006512871.1  retinoic acid early-inducible protein 1-delta isoform X1

      Conserved Domains (1) summary
      cl08246
      Location:31 → 200
      MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9JI58.1 GenPept UniProtKB/Swiss-Prot:Q9JI58

    Gene LinkOut

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

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