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    Clec2dl1 C-type lectin domain family 2 member D-like 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 689790, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Clec2dl1provided by RGD
    Official Full Name
    C-type lectin domain family 2 member D-like 1provided by RGD
    Primary source
    RGD:1588698
    See related
    EnsemblRapid:ENSRNOG00000072423 AllianceGenome:RGD:1588698
    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
    Clec2d6
    Summary
    Predicted to enable natural killer cell lectin-like receptor binding activity. Predicted to be active in external side of plasma membrane. Orthologous to human CLEC2D (C-type lectin domain family 2 member D). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Liver (RPKM 18.1), Thymus (RPKM 8.7) and 7 other tissues See more
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    Genomic context

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    See Clec2dl1 in Genome Data Viewer
    Location:
    4q42
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (163949688..163960935)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (162263635..162274882)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (162391309..162402569)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene C-type lectin domain family 2 member D2 like 2 Neighboring gene C-type lectin domain family 2, member D Neighboring gene protein phosphatase 2, regulatory subunit B', alpha like 1 Neighboring gene uncharacterized LOC102549299 Neighboring gene C-type lectin domain family 2, member G like 1 Neighboring gene chromobox 3 like 3 Neighboring gene uncharacterized LOC120102406

    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. Cytomegalovirus evasion of innate immunity by subversion of the NKR-P1B:Clr-b missing-self axis. Voigt S, et al. Immunity, 2007 May. PMID 17462921
    2. Two major groups of rat NKR-P1 receptors can be distinguished based on chromosomal localization, phylogenetic analysis and Clr ligand binding. Kveberg L, et al. Eur J Immunol, 2009 Feb. PMID 19130483
    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

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables natural killer cell lectin-like receptor binding 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
    		  

    General protein information

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    Preferred Names
    C-type lectin domain family 2 member D6

    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_001085404.2 → NP_001078873.1  C-type lectin domain family 2 member D6

      See identical proteins and their annotated locations for NP_001078873.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/Swiss-Prot
      A4KWA8
      UniProtKB/TrEMBL
      B7TXW3
      Related
      ENSRNOP00000048461.2, ENSRNOT00000047790.4
      Conserved Domains (1) summary
      cd03593
      Location:112 → 224
      CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)

    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_086022.1 Reference GRCr8

      Range
      163949688..163960935
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008763333.4 → XP_008761555.1  C-type lectin domain family 2 member D6 isoform X1

      Related
      ENSRNOP00000103094.1, ENSRNOT00000159982.1
      Conserved Domains (1) summary
      cd03593
      Location:56 → 168
      CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A4KWA8.1 GenPept UniProtKB/Swiss-Prot:A4KWA8

    Gene LinkOut

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

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