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

Gene ID: 449809, updated on 14-Nov-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, Nov 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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