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

Gene ID: 561131, updated on 19-Jan-2025

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, Jan 2025]
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. Alcohol exposure suppresses ribosome biogenesis and causes nucleolar stress in cranial neural crest cells. Flentke GR, et al. PLoS One, 2024. PMID 38941348, Free PMC Article
  4. 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
  5. Fishing the molecular bases of Treacher Collins syndrome. Weiner AM, et al. PLoS One, 2012. PMID 22295061, Free PMC Article

See all (10) 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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