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    Clec9a C-type lectin domain containing 9A [ Rattus norvegicus (Norway rat) ]

    Gene ID: 502901, updated on 2-Nov-2024

    Summary

    Official Symbol
    Clec9aprovided by RGD
    Official Full Name
    C-type lectin domain containing 9Aprovided by RGD
    Primary source
    RGD:1562513
    See related
    EnsemblRapid:ENSRNOG00000051690 AllianceGenome:RGD:1562513
    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
    RGD1562513
    Summary
    Predicted to enable carbohydrate binding activity. Predicted to be involved in positive regulation of cytokine production and receptor-mediated endocytosis. Predicted to be located in membrane. Predicted to be active in cell surface. Orthologous to human CLEC9A (C-type lectin domain containing 9A). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Spleen (RPKM 92.2), Lung (RPKM 84.2) and 7 other tissues See more
    Orthologs
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    Genomic context

    See Clec9a in Genome Data Viewer
    Location:
    4q42
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (164546323..164561380)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (162859742..162875742)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (163173593..163189532)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene C-type lectin domain family 12, member B Neighboring gene C-type lectin domain family 1, member B Neighboring gene C-type lectin domain family 1, member A Neighboring gene uncharacterized LOC120102409 Neighboring gene C-type lectin domain containing 7A

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in positive regulation of cytokine production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of cytokine production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in receptor-mediated endocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in receptor-mediated endocytosis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in receptor-mediated endocytosis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    is_active_in cell surface IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cell surface ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    C-type lectin domain family 9 member A
    Names
    C-type lectin domain family 9, member A

    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_001109354.1NP_001102824.1  C-type lectin domain family 9 member A

      See identical proteins and their annotated locations for NP_001102824.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473964
      UniProtKB/Swiss-Prot
      D4AD02, D9Z4I7
      UniProtKB/TrEMBL
      A6IM47
      Related
      ENSRNOP00000071858.1, ENSRNOT00000088108.3
      Conserved Domains (1) summary
      cd03593
      Location:113234
      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
      164546323..164561380
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)