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ncl nucleolin [ Danio rerio (zebrafish) ]

Gene ID: 767714, updated on 8-Jan-2023

Summary

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 heart looping; rRNA processing; and rRNA transcription. 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, Apr 2022]
Orthologs
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Genomic context

See ncl in Genome Data Viewer
Location:
chromosome: 22
Exon count:
17
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (36673699..36690752, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (36704690..36721742, complement)
103 previous assembly Zv9 (GCF_000002035.4) 22 NC_007133.5 (39555940..39572992, 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 tripartite motif containing 35-34 Neighboring gene tripartite motif containing 35-33

Genomic regions, transcripts, and products

Expression

  • 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

Pathways from PubChem

General gene information

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
PubMed 
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 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 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytoplasm IEA
Inferred from Electronic Annotation
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
PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
part_of ribonucleoprotein complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

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_001076652.2NP_001070120.2  nucleolin

    Status: VALIDATED

    Source sequence(s)
    CU469540, CU539057
    UniProtKB/TrEMBL
    A0A8M1NB67, F1R6L6
    Conserved Domains (5) summary
    COG0724
    Location:347630
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12403
    Location:287361
    RRM1_NCL; RNA recognition motif 1 in vertebrate nucleolin
    cd12404
    Location:374450
    RRM2_NCL; RNA recognition motif 2 in vertebrate nucleolin
    cd12405
    Location:464535
    RRM3_NCL; RNA recognition motif 3 in vertebrate nucleolin
    cd12406
    Location:554631
    RRM4_NCL; RNA recognition motif 4 in vertebrate nucleolin

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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..36690752 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005170548.4XP_005170605.1  nucleolin isoform X2

    UniProtKB/TrEMBL
    A0A8M2BHX2
    Conserved Domains (5) summary
    COG0724
    Location:299582
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12403
    Location:239313
    RRM1_NCL; RNA recognition motif 1 in vertebrate nucleolin
    cd12404
    Location:326402
    RRM2_NCL; RNA recognition motif 2 in vertebrate nucleolin
    cd12405
    Location:416487
    RRM3_NCL; RNA recognition motif 3 in vertebrate nucleolin
    cd12406
    Location:506583
    RRM4_NCL; RNA recognition motif 4 in vertebrate nucleolin
  2. XM_005170547.4XP_005170604.1  nucleolin isoform X1

    UniProtKB/TrEMBL
    A0A8M2BHW5, B8JLQ3
    Related
    ENSDARP00000109546.2, ENSDART00000124698.4
    Conserved Domains (5) summary
    COG0724
    Location:346629
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12403
    Location:286360
    RRM1_NCL; RNA recognition motif 1 in vertebrate nucleolin
    cd12404
    Location:373449
    RRM2_NCL; RNA recognition motif 2 in vertebrate nucleolin
    cd12405
    Location:463534
    RRM3_NCL; RNA recognition motif 3 in vertebrate nucleolin
    cd12406
    Location:553630
    RRM4_NCL; RNA recognition motif 4 in vertebrate nucleolin