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Ncl nucleolin [ Mus musculus (house mouse) ]

Gene ID: 17975, updated on 8-Jan-2023

Summary

Official Symbol
Nclprovided by MGI
Official Full Name
nucleolinprovided by MGI
Primary source
MGI:MGI:97286
See related
Ensembl:ENSMUSG00000026234 AllianceGenome:MGI:97286
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
C23; Nucl; D0Nds28; D1Nds28; B530004O11Rik
Summary
Enables RNA binding activity. Acts upstream of or within cellular response to epidermal growth factor stimulus; cellular response to leukemia inhibitory factor; and positive regulation of transcription by RNA polymerase II. Located in nucleolus and nucleoplasm. Is expressed in several structures, including 1st branchial arch mandibular component; blastocyst; central nervous system; early embryo; and tooth. Orthologous to human NCL (nucleolin). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in CNS E11.5 (RPKM 52.4), liver E14 (RPKM 41.1) and 11 other tissues See more
Orthologs
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Genomic context

See Ncl in Genome Data Viewer
Location:
1 C5; 1 43.94 cM
Exon count:
15
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (86272441..86287177, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (86344719..86359455, complement)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene CRISPRi-validated B3gnt7 cis-regulatory element Neighboring gene predicted gene 5258 Neighboring gene small nucleolar RNA, H/ACA box 75 Neighboring gene microRNA 3535 Neighboring gene RIKEN cDNA C130036L24 gene Neighboring gene small nucleolar RNA, C/D box 82 Neighboring gene neuromedin U receptor 1

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA topoisomerase binding ISO
Inferred from Sequence Orthology
more info
 
enables DNA-binding transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
enables ErbB-4 class receptor binding ISO
Inferred from Sequence Orthology
more info
 
enables PH domain binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA binding ISO
Inferred from Sequence Orthology
more info
 
enables calcium ion binding ISO
Inferred from Sequence Orthology
more info
 
enables histone binding ISO
Inferred from Sequence Orthology
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables insulin receptor substrate binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables laminin binding ISO
Inferred from Sequence Orthology
more info
 
enables mRNA 5'-UTR binding ISO
Inferred from Sequence Orthology
more info
 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables rRNA primary transcript binding ISO
Inferred from Sequence Orthology
more info
 
enables selenocysteine insertion sequence binding ISO
Inferred from Sequence Orthology
more info
 
enables sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables signaling receptor binding ISO
Inferred from Sequence Orthology
more info
 
enables single-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables telomeric DNA binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in angiogenesis ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cellular response to epidermal growth factor stimulus IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within cellular response to leukemia inhibitory factor IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in cellular response to lipopolysaccharide ISO
Inferred from Sequence Orthology
more info
 
involved_in endocytosis ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of apoptotic process ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of insulin receptor signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of translation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of interleukin-6 production ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in positive regulation of transcription of nucleolar large rRNA by RNA polymerase I ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of tumor necrosis factor production ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within regulation of peptidyl-tyrosine phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of rRNA processing ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cell cortex ISO
Inferred from Sequence Orthology
more info
 
located_in cell surface ISO
Inferred from Sequence Orthology
more info
 
located_in chromosome ISO
Inferred from Sequence Orthology
more info
 
is_active_in cornified envelope IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasmic ribonucleoprotein granule ISO
Inferred from Sequence Orthology
more info
 
located_in dense fibrillar component ISO
Inferred from Sequence Orthology
more info
 
located_in fibrillar center ISO
Inferred from Sequence Orthology
more info
 
located_in nucleolus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
part_of ribonucleoprotein complex ISO
Inferred from Sequence Orthology
more info
PubMed 
part_of spliceosomal 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_010880.3NP_035010.3  nucleolin

    See identical proteins and their annotated locations for NP_035010.3

    Status: VALIDATED

    Source sequence(s)
    AC102609, AK144894, CJ084318
    Consensus CDS
    CCDS35646.1
    UniProtKB/Swiss-Prot
    P09405, Q99K50
    Related
    ENSMUSP00000027438.7, ENSMUST00000027438.8
    Conserved Domains (4) summary
    cd12403
    Location:309383
    RRM1_NCL; RNA recognition motif 1 in vertebrate nucleolin
    cd12404
    Location:392467
    RRM2_NCL; RNA recognition motif 2 in vertebrate nucleolin
    cd12405
    Location:486558
    RRM3_NCL; RNA recognition motif 3 in vertebrate nucleolin
    cd12406
    Location:569646
    RRM4_NCL; RNA recognition motif 4 in vertebrate nucleolin

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000067.7 Reference GRCm39 C57BL/6J

    Range
    86272441..86287177 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006529238.4XP_006529301.1  nucleolin isoform X1

    Conserved Domains (5) summary
    PRK10905
    Location:34124
    PRK10905; cell division protein DamX; Validated
    cd12403
    Location:293367
    RRM1_NCL; RNA recognition motif 1 in vertebrate nucleolin
    cd12404
    Location:376451
    RRM2_NCL; RNA recognition motif 2 in vertebrate nucleolin
    cd12405
    Location:470542
    RRM3_NCL; RNA recognition motif 3 in vertebrate nucleolin
    cd12406
    Location:553630
    RRM4_NCL; RNA recognition motif 4 in vertebrate nucleolin