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

Gene ID: 56554, updated on 17-Apr-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 anchored component of plasma membrane. Is expressed in embryo; liver; and spleen. Orthologous to human RAET1E (retinoic acid early transcript 1E). [provided by Alliance of Genome Resources, Apr 2022]
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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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 membrane IEA
Inferred from Electronic Annotation
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
  
located_in side of membrane IEA
Inferred from Electronic Annotation
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

  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

    UniProtKB/Swiss-Prot
    Q3KQI0, Q9JI58
    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

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