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    cltrn collectrin, amino acid transport regulator [ Danio rerio (zebrafish) ]

    Gene ID: 402976, updated on 9-Dec-2024

    Summary

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    Official Symbol
    cltrnprovided by ZNC
    Official Full Name
    collectrin, amino acid transport regulatorprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-100922-43
    See related
    Ensembl:ENSDARG00000041644 AllianceGenome:ZFIN:ZDB-GENE-100922-43
    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
    tmem27; si:dkey-194e6.1
    Summary
    Predicted to be involved in positive regulation of amino acid transport. Predicted to be located in membrane. Predicted to be active in plasma membrane. Orthologous to human CLTRN (collectrin, amino acid transport regulator). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See cltrn in Genome Data Viewer
    Location:
    chromosome: 23
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 23 NC_007134.7 (40872688..40895168, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 23 NC_007134.6 (40979784..41002264, complement)

    Chromosome 23 - NC_007134.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137489062 Neighboring gene uncharacterized LOC137489149 Neighboring gene RALBP1 associated Eps domain containing 2 Neighboring gene Nance-Horan syndrome a (congenital cataracts and dental anomalies)

    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. Analysis of DNA methylation reveals a partial reprogramming of the Müller glia genome during retina regeneration. Powell C, et al. Proc Natl Acad Sci U S A, 2013 Dec 3. PMID 24248357, Free PMC Article
    2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    3. 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
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. 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

    Process Evidence Code Pubs
    involved_in positive regulation of amino acid transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    collectrin
    Names
    transmembrane protein 27

    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_001139458.1 → NP_001132930.1  collectrin precursor

      Status: VALIDATED

      Source sequence(s)
      BC155583, EB927370
      UniProtKB/TrEMBL
      A0A8M1NLV3, F1QQZ6, Q1JPS7
      Related
      ENSDARP00000061036.5, ENSDART00000061037.6
      Conserved Domains (1) summary
      pfam16959
      Location:38 → 186
      Collectrin; Renal amino acid transporter

    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_007134.7 Reference GRCz11 Primary Assembly

      Range
      40872688..40895168 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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