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    cln6a CLN6 transmembrane ER protein a [ Danio rerio (zebrafish) ]

    Gene ID: 449809, updated on 9-Dec-2024

    Summary

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    Official Symbol
    cln6aprovided by ZNC
    Official Full Name
    CLN6 transmembrane ER protein aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-041010-57
    See related
    Ensembl:ENSDARG00000077584 AllianceGenome:ZFIN:ZDB-GENE-041010-57
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    cln6; zgc:103565
    Summary
    Predicted to be involved in lysosome organization. Predicted to be active in endoplasmic reticulum and membrane. Human ortholog(s) of this gene implicated in neuronal ceroid lipofuscinosis; neuronal ceroid lipofuscinosis 6A; and neuronal ceroid lipofuscinosis 6B. Orthologous to human CLN6 (CLN6 transmembrane ER protein). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See cln6a in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (34487847..34492609)
    105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (34216357..34221132)

    Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene nuclear receptor subfamily 1, group H, member 3 Neighboring gene counting factor associated protein D-like Neighboring gene calmodulin-like 4a Neighboring gene testis expressed 9

    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. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    2. 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
    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
    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

    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    ceroid-lipofuscinosis neuronal protein 6a
    Names
    ceroid-lipofuscinosis, neuronal 6a

    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_001005982.1 → NP_001005982.1  ceroid-lipofuscinosis neuronal protein 6a

      See identical proteins and their annotated locations for NP_001005982.1

      Status: PROVISIONAL

      Source sequence(s)
      BC083427
      UniProtKB/TrEMBL
      Q5XJ78
      Related
      ENSDARP00000142908.1, ENSDART00000173854.2
      Conserved Domains (1) summary
      pfam15156
      Location:19 → 297
      CLN6; Ceroid-lipofuscinosis neuronal protein 6

    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_007118.7 Reference GRCz11 Primary Assembly

      Range
      34487847..34492609
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005168975.5 → XP_005169032.1  ceroid-lipofuscinosis neuronal protein 6a isoform X1

      UniProtKB/TrEMBL
      A0A8M2BGW5
      Conserved Domains (1) summary
      pfam15156
      Location:20 → 298
      CLN6; Ceroid-lipofuscinosis neuronal protein 6
    Nucleotide Protein
    Heading Accession and Version

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