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

Gene ID: 393184, updated on 4-Jan-2025

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. 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, Jan 2025]
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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