Ncl nucleolin [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nclprovided by RGD
Official Full Name: nucleolinprovided by RGD
Primary source: RGD:3153
See related: EnsemblRapid:ENSRNOG00000018273 AllianceGenome:RGD:3153
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables several functions, including ErbB-4 class receptor binding activity; calcium ion binding activity; and nucleic acid binding activity. Involved in several processes, including cellular response to lipopolysaccharide; liver regeneration; and regulation of gene expression. Located in cell surface; dense fibrillar component; and fibrillar center. Orthologous to human NCL (nucleolin). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Spleen (RPKM 490.1), Thymus (RPKM 465.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 9q35

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (94447559..94456083, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (86999588..87008112, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (93369119..93377643, complement)

Chromosome 9 - NC_086027.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

LncRNA H19 is involved in myocardial ischemic preconditioning via increasing the stability of nucleolin protein.
Title: LncRNA H19 is involved in myocardial ischemic preconditioning via increasing the stability of nucleolin protein.
Phosphorylated nucleolin interacted with Ago2 in the cytoplasm to protect the cardiomyocytes from oxidative stress by up-expression of miR-21.
Title: Phosphorylation of nucleolin is indispensable to upregulate miR-21 and inhibit apoptosis in cardiomyocytes.
These results have demonstrated that nucleolin is involved in the regulation of Doxorubicin-induced cardiac injury and dysfunction via the regulation of miRNA-21.
Title: Nucleolin protects against doxorubicin-induced cardiotoxicity via upregulating microRNA-21.
Upregulation of nucleolin had an important role in Ang IIinduced vascular smooth muscle cell phenotypic transformation, and its underlying mechanism may be through interacting with tropoelastin mRNA, leading to its increased stability and protein expression.
Title: Nucleolin promotes Ang II‑induced phenotypic transformation of vascular smooth muscle cells via interaction with tropoelastin mRNA.
nucleolin is up-regulated and involved in myocardial protection of ischaemic preconditioning via a post-transcriptional control of HSPA1A expression
Title: Nucleolin involved in myocardial ischaemic preconditioning via post-transcriptional control of HSPA1A expression.
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.
Nucleolin is involved in the regulation of ischemia reperfusion-induced cardiac injury and dysfunction via the regulation of Hsp32.
Title: Nucleolin protects the heart from ischaemia-reperfusion injury by up-regulating heat shock protein 32.
alphavbeta3 integrin and nucleolin interact to regulate endothelial and glioma cell migration
Title: Interplay between αvβ3 integrin and nucleolin regulates human endothelial and glioma cell migration.
Cell-surface nucleolin is involved in lipopolysaccharide internalization and signalling in alveolar macrophages.
Title: Cell-surface nucleolin is involved in lipopolysaccharide internalization and signalling in alveolar macrophages.
nucleolin/C23 is an essential downstream effecter of Hsp70 in the protection of cardiomyocytes against oxidative stress-induced apoptosis.
Title: Nucleolin/C23 mediates the antiapoptotic effect of heat shock protein 70 during oxidative stress.

Submit: New GeneRIF Correction See all GeneRIFs (13)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH94572 (e-PCR)
- UniSTS:119820

PMC312758P1 (e-PCR)
- UniSTS:272912

PMC133987P2 (e-PCR)
- UniSTS:270700

d9arb5 (e-PCR)
- UniSTS:122479

D1S3697 (e-PCR)
- UniSTS:474275

PMC55360P1 (e-PCR)
- UniSTS:273334

Ncl (e-PCR), detects polymorphism
- UniSTS:479178

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA topoisomerase binding	IEA Inferred from Electronic Annotation more info
enables DNA topoisomerase binding	ISO Inferred from Sequence Orthology more info
enables ErbB-4 class receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables PH domain binding	IEA Inferred from Electronic Annotation more info
enables PH domain binding	ISO Inferred from Sequence Orthology more info
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	ISO Inferred from Sequence Orthology more info
enables RNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables calcium ion binding	IDA Inferred from Direct Assay more info	PubMed
enables histone binding	IDA Inferred from Direct Assay more info	PubMed
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables insulin receptor substrate binding	IEA Inferred from Electronic Annotation more info
enables insulin receptor substrate binding	ISO Inferred from Sequence Orthology more info
enables laminin binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA 5'-UTR binding	IEA Inferred from Electronic Annotation more info
enables mRNA 5'-UTR binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables rRNA primary transcript binding	IDA Inferred from Direct Assay more info	PubMed
enables selenocysteine insertion sequence binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables signaling receptor binding	IDA Inferred from Direct Assay more info	PubMed
enables single-stranded DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables telomeric DNA binding	IEA Inferred from Electronic Annotation more info
enables telomeric DNA binding	ISO Inferred from Sequence Orthology more info
enables telomeric DNA binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in angiogenesis	IEA Inferred from Electronic Annotation more info
involved_in angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in cellular response to epidermal growth factor stimulus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cellular response to epidermal growth factor stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to leukemia inhibitory factor	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cellular response to leukemia inhibitory factor	ISO Inferred from Sequence Orthology more info
involved_in cellular response to lipopolysaccharide	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in endocytosis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in liver regeneration	IEP Inferred from Expression Pattern more info	PubMed
involved_in negative regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of insulin receptor signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of insulin receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of translation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interleukin-6 production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription of nucleolar large rRNA by RNA polymerase I	IEA Inferred from Electronic Annotation more info
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	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in regulation of rRNA processing	IDA Inferred from Direct Assay more info	PubMed
involved_in spermatogenesis	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in cell cortex	IEA Inferred from Electronic Annotation more info
located_in cell cortex	ISO Inferred from Sequence Orthology more info
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in chromosome	ISO Inferred from Sequence Orthology more info
located_in cornified envelope	IEA Inferred from Electronic Annotation more info
is_active_in cornified envelope	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic ribonucleoprotein granule	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic ribonucleoprotein granule	ISO Inferred from Sequence Orthology more info
located_in dense fibrillar component	IDA Inferred from Direct Assay more info	PubMed
located_in fibrillar center	IDA Inferred from Direct Assay more info	PubMed
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of ribonucleoprotein complex	IEA Inferred from Electronic Annotation more info
part_of ribonucleoprotein complex	ISO Inferred from Sequence Orthology more info
part_of ribonucleoprotein complex	ISS Inferred from Sequence or Structural Similarity more info
part_of spliceosomal complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: nucleolin

Names: nucleolin-like protein

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)

NM_012749.2 → NP_036881.2 nucleolin

See identical proteins and their annotated locations for NP_036881.2

Status: PROVISIONAL

Source sequence(s)

BC085751

UniProtKB/Swiss-Prot

P13383

UniProtKB/TrEMBL

A6JWG9, F7EJZ2, Q5U328

Related

ENSRNOP00000076825.2, ENSRNOT00000118117.2

Conserved Domains (4) summary

cd12403
Location:312 → 386

RRM1_NCL; RNA recognition motif 1 in vertebrate nucleolin

cd12404
Location:395 → 470

RRM2_NCL; RNA recognition motif 2 in vertebrate nucleolin

cd12405
Location:489 → 561

RRM3_NCL; RNA recognition motif 3 in vertebrate nucleolin

cd12406
Location:576 → 653

RRM4_NCL; RNA recognition motif 4 in vertebrate nucleolin