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    clec16a C-type lectin domain containing 16A [ Danio rerio (zebrafish) ]

    Gene ID: 393184, updated on 9-Dec-2024

    Summary

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    Official Symbol
    clec16aprovided by ZNC
    Official Full Name
    C-type lectin domain containing 16Aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-951
    See related
    Ensembl:ENSDARG00000038094 AllianceGenome:ZFIN:ZDB-GENE-040426-951
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:56230
    Summary
    Acts upstream of or within regulation of mitophagy. Predicted to be active in Golgi apparatus. Predicted to colocalize with late endosome. Human ortholog(s) of this gene implicated in Addison's disease; multiple sclerosis; rheumatoid arthritis; and type 1 diabetes mellitus. Orthologous to human CLEC16A (C-type lectin domain containing 16A). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See clec16a in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (26823788..26904873, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (26692915..26774036, complement)

    Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene phosphatidylinositol glycan anchor biosynthesis, class Q Neighboring gene suppressor of cytokine signaling 1a Neighboring gene Dexi homolog (mouse) Neighboring gene class II, major histocompatibility complex, transactivator

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Suppressor of cytokine signaling 1 regulates embryonic myelopoiesis independently of its effects on T cell development. O'Sullivan LA, et al. J Immunol, 2011 Apr 15. PMID 21421851
    2. Evolution of JAK-STAT pathway components: mechanisms and role in immune system development. Liongue C, et al. PLoS One, 2012. PMID 22412924, Free PMC Article
    3. CLEC16A interacts with retromer and TRIM27, and its loss impairs endosomal trafficking and neurodevelopment. Smits DJ, et al. Hum Genet, 2023 Mar. PMID 36538041, Free PMC Article
    4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CLEC16A interacts with retromer and TRIM27, and its loss impairs endosomal trafficking and neurodevelopment.
      Title: CLEC16A interacts with retromer and TRIM27, and its loss impairs endosomal trafficking and neurodevelopment.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC56230

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    acts_upstream_of_or_within autophagy IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of autophagy IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of mitophagy IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    protein CLEC16A
    Names
    C-type lectin domain family 16, member A

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007114.7 Reference GRCz11 Primary Assembly

      Range
      26823788..26904873 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005163918.5 → XP_005163975.1  protein CLEC16A isoform X2

      UniProtKB/TrEMBL
      A0A8M2BB38, A0A8M2BB67
      Related
      ENSDARP00000129343.1, ENSDART00000156150.3
      Conserved Domains (1) summary
      pfam09758
      Location:49 → 196
      FPL; uncharacterized conserved protein

    2. XM_005163916.5 → XP_005163973.1  protein CLEC16A isoform X1

      UniProtKB/TrEMBL
      A0A8M1RNA6, A0A8M2BBF3
      Conserved Domains (1) summary
      pfam09758
      Location:49 → 196
      FPL; uncharacterized conserved protein

    3. XM_068218017.1 → XP_068074118.1  protein CLEC16A isoform X4

      UniProtKB/TrEMBL
      A0A8M1RNA6

    4. XM_068218015.1 → XP_068074116.1  protein CLEC16A isoform X3

      UniProtKB/TrEMBL
      A0A8M9PR56

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_200215.1: Suppressed sequence

      Description
      NM_200215.1: This RefSeq was permanently suppressed because there is insufficient support for the transcript.
    Nucleotide Protein Strain
    Heading Accession and Version

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