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    si:dkey-26c10.5 si:dkey-26c10.5 [ Danio rerio (zebrafish) ]

    Gene ID: 563797, updated on 2-Nov-2024

    Summary

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    Official Symbol
    si:dkey-26c10.5provided by ZNC
    Official Full Name
    si:dkey-26c10.5provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-060607-13
    See related
    Ensembl:ENSDARG00000088023 AllianceGenome:ZFIN:ZDB-GENE-060607-13
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    wu:fq38b10
    Summary
    Predicted to enable carbohydrate binding activity. Predicted to be located in membrane. Is expressed in brain; liver; and neurons. Orthologous to human CLEC2A (C-type lectin domain family 2 member A); CLEC2D (C-type lectin domain family 2 member D); and CD69 (CD69 molecule). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    all
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    Genomic context

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    See si:dkey-26c10.5 in Genome Data Viewer
    Location:
    chromosome: 16
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 16 NC_007127.7 (12281032..12294468)
    105 previous assembly GRCz10 (GCF_000002035.5) 16 NC_007127.6 (12390130..12403566)

    Chromosome 16 - NC_007127.7Genomic Context describing neighboring genes Neighboring gene zgc:92606 Neighboring gene leukocyte receptor cluster (LRC) member 8 Neighboring gene transient receptor potential cation channel, subfamily V, member 6 Neighboring gene eph receptor B6 Neighboring gene solute carrier family 2 member 3b

    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. Studies Into β-Glucan Recognition in Fish Suggests a Key Role for the C-Type Lectin Pathway. Petit J, et al. Front Immunol, 2019. PMID 30863400, Free PMC Article
    2. Contrasted innate responses to two viruses in zebrafish: insights into the ancestral repertoire of vertebrate IFN-stimulated genes. Briolat V, et al. J Immunol, 2014 May 1. PMID 24683187
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    uncharacterized protein LOC563797

    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_001326572.1 → NP_001313501.1  uncharacterized protein LOC563797 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      CR388102, EH437543, EH598364
      UniProtKB/TrEMBL
      A0A8M1P8U0, E9QC14
      Related
      ENSDARP00000123441.1, ENSDART00000138638.3
      Conserved Domains (1) summary
      cl02432
      Location:147 → 264
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

    2. NM_001326573.1 → NP_001313502.1  uncharacterized protein LOC563797 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate start site compared to variant 1. The encoded isoform (1) has a shorter and distinct N-terminus compared to isoform 1.
      Source sequence(s)
      CR388102, EH437543, EH592146, EH598364
      UniProtKB/TrEMBL
      A0A8M1P2U6, E7EZ52
      Related
      ENSDARP00000111689.1, ENSDART00000130736.3
      Conserved Domains (1) summary
      cl02432
      Location:102 → 219
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

    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_007127.7 Reference GRCz11 Primary Assembly

      Range
      12281032..12294468
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_2

    Genomic

    1. NW_018395324.1 Reference GRCz11 ALT_DRER_TU_2

      Range
      235023..247040
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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