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    Cd48 Cd48 molecule [ Rattus norvegicus (Norway rat) ]

    Gene ID: 245962, updated on 3-Jan-2019

    Summary

    Official Symbol
    Cd48provided by RGD
    Official Full Name
    Cd48 moleculeprovided by RGD
    Primary source
    RGD:620620
    See related
    Ensembl:ENSRNOG00000004737
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    SLAMF2
    Summary
    plays a role in mast cell activation and response to Mycobacterium tuberculosis [RGD, Feb 2006]
    Expression
    Biased expression in Lung (RPKM 790.6), Spleen (RPKM 675.6) and 9 other tissues See more
    Orthologs

    Genomic context

    See Cd48 in Genome Data Viewer
    Location:
    13q24
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (90116601..90140371)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 13 NC_005112.3 (94737388..94762199)

    Chromosome 13 - NC_005112.4Genomic Context describing neighboring genes Neighboring gene SLAM family member 7 Neighboring gene uncharacterized LOC103692286 Neighboring gene uncharacterized LOC108352573 Neighboring gene signaling lymphocytic activation molecule family member 1 Neighboring gene uncharacterized LOC103692288 Neighboring gene CD84 molecule

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    antigen binding IEA
    Inferred from Electronic Annotation
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    signaling receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    T cell activation ISO
    Inferred from Sequence Orthology
    more info
     
    mast cell activation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of adaptive immune response IEA
    Inferred from Electronic Annotation
    more info
     
    signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    anchored component of plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    external side of plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    membrane raft ISO
    Inferred from Sequence Orthology
    more info
     
    plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein-containing complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    CD48 antigen
    Names
    BCM1 surface antigen
    BLAST-1
    MRC OX-45 surface antigen
    SLAM family member 2
    signaling lymphocytic activation molecule 2

    NCBI Reference Sequences (RefSeq)

    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_139103.1NP_620803.1  CD48 antigen precursor

      See identical proteins and their annotated locations for NP_620803.1

      Status: PROVISIONAL

      Source sequence(s)
      X13016
      UniProtKB/Swiss-Prot
      P10252
      Related
      ENSRNOP00000006306.4, ENSRNOT00000006306.7
      Conserved Domains (3) summary
      cd05741
      Location:36124
      Ig_CEACAM_D1_like; First immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion molecule (CEACAM) and similar proteins
      smart00410
      Location:29107
      IG_like; Immunoglobulin like
      pfam13895
      Location:140202
      Ig_2; Immunoglobulin domain

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005112.4 Reference Rnor_6.0 Primary Assembly

      Range
      90116601..90140371
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_359106.3 RNA Sequence

    Alternate Rn_Celera

    Genomic

    1. AC_000081.1 Alternate Rn_Celera

      Range
      83815242..83838711
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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