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    ncl nucleolin [ Danio rerio (zebrafish) ]

    Gene ID: 767714, updated on 9-Dec-2024

    Summary

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    Official Symbol
    nclprovided by ZNC
    Official Full Name
    nucleolinprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-6986
    See related
    Ensembl:ENSDARG00000002710 AllianceGenome:ZFIN:ZDB-GENE-030131-6986
    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
    fa12d03; wu:fa12d03; zgc:152810
    Summary
    Predicted to enable mRNA binding activity. Acts upstream of or within several processes, including heart looping; rRNA metabolic process; and regulation of fibroblast growth factor receptor signaling pathway. Predicted to be located in nucleolus. Predicted to be part of ribonucleoprotein complex. Predicted to be active in cytoplasm and nucleus. Is expressed in cardiac ventricle. Orthologous to human NCL (nucleolin). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See ncl in Genome Data Viewer
    Location:
    chromosome: 22
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (36673699..36690751, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (36704690..36721742, complement)

    Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene armadillo repeat containing 9 Neighboring gene UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 7 Neighboring gene small nucleolar RNA SNORA75 Neighboring gene small nucleolar RNA SNORA75 Neighboring gene tripartite motif containing 35-34 Neighboring gene tripartite motif containing 35-33

    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. Genomic organization of nucleolin gene in carp fish: evidence for several genes. Quezada C, et al. Biol Res, 2006. PMID 16874410
    2. Systems proteomics of cardiac chromatin identifies nucleolin as a regulator of growth and cellular plasticity in cardiomyocytes. Monte E, et al. Am J Physiol Heart Circ Physiol, 2013 Dec 1. PMID 24077883, Free PMC Article
    3. Cytoplasmic polyadenylation-mediated translational control of maternal mRNAs directs maternal-to-zygotic transition. Winata CL, et al. Development, 2018 Jan 8. PMID 29229769
    4. Early embryonic exposure to polychlorinated biphenyls disrupts heat-shock protein 70 cognate expression in zebrafish. Kreiling JA, et al. J Toxicol Environ Health A, 2007 Jun. PMID 17497411
    5. Cross talk between TP53 and c-Myc in the pathophysiology of Diamond-Blackfan anemia: Evidence from RPL11-deficient in vivo and in vitro models. Chakraborty A, et al. Biochem Biophys Res Commun, 2018 Jan 8. PMID 29225165

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Suggest that during heart disease nucleolin is reactivated to mobilize conserved aspects of chromatin remodeling and gene expression.
      Title: Systems proteomics of cardiac chromatin identifies nucleolin as a regulator of growth and cellular plasticity in cardiomyocytes.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC152810

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within heart looping IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within ossification IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within rRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within rRNA transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of cartilage development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of fibroblast growth factor receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of ribonucleoprotein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    nucleolin

    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_001076652.2 → NP_001070120.2  nucleolin

      Status: VALIDATED

      Source sequence(s)
      CU469540, CU539057
      UniProtKB/TrEMBL
      A0A8M1NB67, F1R6L6
      Conserved Domains (5) summary
      COG0724
      Location:347 → 630
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12403
      Location:287 → 361
      RRM1_NCL; RNA recognition motif 1 in vertebrate nucleolin
      cd12404
      Location:374 → 450
      RRM2_NCL; RNA recognition motif 2 in vertebrate nucleolin
      cd12405
      Location:464 → 535
      RRM3_NCL; RNA recognition motif 3 in vertebrate nucleolin
      cd12406
      Location:554 → 631
      RRM4_NCL; RNA recognition motif 4 in vertebrate nucleolin

    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_007133.7 Reference GRCz11 Primary Assembly

      Range
      36673699..36690751 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005170547.5 → XP_005170604.1  nucleolin isoform X1

      UniProtKB/TrEMBL
      A0A8M2BHW5, B8JLQ3
      Related
      ENSDARP00000109546.2, ENSDART00000124698.4
      Conserved Domains (5) summary
      COG0724
      Location:346 → 629
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12403
      Location:286 → 360
      RRM1_NCL; RNA recognition motif 1 in vertebrate nucleolin
      cd12404
      Location:373 → 449
      RRM2_NCL; RNA recognition motif 2 in vertebrate nucleolin
      cd12405
      Location:463 → 534
      RRM3_NCL; RNA recognition motif 3 in vertebrate nucleolin
      cd12406
      Location:553 → 630
      RRM4_NCL; RNA recognition motif 4 in vertebrate nucleolin
    Nucleotide Protein Strain
    Heading Accession and Version

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