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    nolc1 nucleolar and coiled-body phosphoprotein 1 [ Danio rerio (zebrafish) ]

    Gene ID: 561131, updated on 9-Dec-2024

    Summary

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    Official Symbol
    nolc1provided by ZNC
    Official Full Name
    nucleolar and coiled-body phosphoprotein 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-6349
    See related
    Ensembl:ENSDARG00000024561 AllianceGenome:ZFIN:ZDB-GENE-030131-6349
    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
    nolc1l; fd05f01; fi49h02; wu:fd05f01; wu:fi49h02
    Summary
    Acts upstream of or within embryonic cranial skeleton morphogenesis. Predicted to be located in nucleus. Predicted to be active in nucleolus and nucleoplasm. Is expressed in gut; head; immature eye; nervous system; and pectoral fin bud. Used to study Treacher Collins syndrome. Orthologous to human NOLC1 (nucleolar and coiled-body phosphoprotein 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See nolc1 in Genome Data Viewer
    Location:
    chromosome: 13
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 13 NC_007124.7 (4973204..4992399, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 13 NC_007124.6 (4844618..4863829, complement)

    Chromosome 13 - NC_007124.7Genomic Context describing neighboring genes Neighboring gene mitochondrial calcium uniporter Neighboring gene mitochondrial calcium uptake 1 Neighboring gene mitochondrial ribosomal protein S6 Neighboring gene prosaposin

    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. Proteasomal inhibition attenuates craniofacial malformations in a zebrafish model of Treacher Collins Syndrome. Rosas MG, et al. Biochem Pharmacol, 2019 May. PMID 30849304
    2. The transcription of the main gene associated with Treacher-Collins syndrome (TCOF1) is regulated by G-quadruplexes and cellular nucleic acid binding protein (CNBP). Gil Rosas M, et al. Sci Rep, 2024 Mar 29. PMID 38553547, Free PMC Article
    3. Gene expression profiles in zebrafish brain after acute exposure to domoic acid at symptomatic and asymptomatic doses. Lefebvre KA, et al. Toxicol Sci, 2009 Jan. PMID 18936300, Free PMC Article
    4. Fishing the molecular bases of Treacher Collins syndrome. Weiner AM, et al. PLoS One, 2012. PMID 22295061, Free PMC Article
    5. Cnbp ameliorates Treacher Collins Syndrome craniofacial anomalies through a pathway that involves redox-responsive genes. de Peralta MS, et al. Cell Death Dis, 2016 Oct 6. PMID 27711076, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The transcription of the main gene associated with Treacher-Collins syndrome (TCOF1) is regulated by G-quadruplexes and cellular nucleic acid binding protein (CNBP).
      Title: The transcription of the main gene associated with Treacher-Collins syndrome (TCOF1) is regulated by G-quadruplexes and cellular nucleic acid binding protein (CNBP).
    2. Tcof1 loss-of-function resulted in fish showing phenotypes similar to those observed in TCS patients
      Title: Fishing the molecular bases of Treacher Collins syndrome.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    acts_upstream_of_or_within cranial skeletal system development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within embryonic cranial skeleton morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    nucleolar and coiled-body phosphoprotein 1
    Names
    tcof1

    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_001256652.1 → NP_001243581.1  nucleolar and coiled-body phosphoprotein 1

      See identical proteins and their annotated locations for NP_001243581.1

      Status: VALIDATED

      Source sequence(s)
      CR854925
      UniProtKB/TrEMBL
      A0A8M1P4J0, B8JIY2
      Related
      ENSDARP00000093426.3, ENSDART00000102651.5
      Conserved Domains (1) summary
      pfam05022
      Location:926 → 992
      SRP40_C; SRP40, C-terminal 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_007124.7 Reference GRCz11 Primary Assembly

      Range
      4973204..4992399 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068212867.1 → XP_068068968.1  nucleolar and coiled-body phosphoprotein 1 isoform X3

    2. XM_068212866.1 → XP_068068967.1  nucleolar and coiled-body phosphoprotein 1 isoform X2

    3. XM_068212870.1 → XP_068068971.1  nucleolar and coiled-body phosphoprotein 1 isoform X6

    4. XM_009307086.4 → XP_009305361.1  nucleolar and coiled-body phosphoprotein 1 isoform X1

      UniProtKB/TrEMBL
      A0A8M3B7S8
      Conserved Domains (1) summary
      pfam05022
      Location:925 → 991
      SRP40_C; SRP40, C-terminal domain

    5. XM_068212868.1 → XP_068068969.1  nucleolar and coiled-body phosphoprotein 1 isoform X4

    6. XM_068212869.1 → XP_068068970.1  nucleolar and coiled-body phosphoprotein 1 isoform X5

    Nucleotide Protein Strain
    Heading Accession and Version

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