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Aliases for NCL Gene

Aliases for NCL Gene

  • Nucleolin 2 3 3 5
  • Protein C23 4
  • C23 3

External Ids for NCL Gene

Previous GeneCards Identifiers for NCL Gene

  • GC02M230377
  • GC02M231051
  • GC02M232283
  • GC02M232521
  • GC02M232522
  • GC02M232144
  • GC02M232027
  • GC02M232318
  • GC02M224160

Summaries for NCL Gene

Entrez Gene Summary for NCL Gene

  • Nucleolin (NCL), a eukaryotic nucleolar phosphoprotein, is involved in the synthesis and maturation of ribosomes. It is located mainly in dense fibrillar regions of the nucleolus. Human NCL gene consists of 14 exons with 13 introns and spans approximately 11kb. The intron 11 of the NCL gene encodes a small nucleolar RNA, termed U20. [provided by RefSeq, Jul 2008]

GeneCards Summary for NCL Gene

NCL (Nucleolin) is a Protein Coding gene. Among its related pathways are Development Slit-Robo signaling and Aurora B signaling. GO annotations related to this gene include nucleic acid binding and identical protein binding. An important paralog of this gene is SART3.

UniProtKB/Swiss-Prot for NCL Gene

  • Nucleolin is the major nucleolar protein of growing eukaryotic cells. It is found associated with intranucleolar chromatin and pre-ribosomal particles. It induces chromatin decondensation by binding to histone H1. It is thought to play a role in pre-rRNA transcription and ribosome assembly. May play a role in the process of transcriptional elongation. Binds RNA oligonucleotides with 5-UUAGGG-3 repeats more tightly than the telomeric single-stranded DNA 5-TTAGGG-3 repeats.

Gene Wiki entry for NCL Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NCL Gene

Genomics for NCL Gene

Regulatory Elements for NCL Gene

Enhancers for NCL Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH02F231405 1.7 FANTOM5 Ensembl ENCODE 10.5 +72.9 72899 10.7 MLX ARID4B SIN3A DMAP1 ZNF48 ZNF2 YY1 GLIS2 CBX5 ZNF143 B3GNT7 ARMC9 ENSG00000233538 SNORA75 SNORD20 HTR2B NCL RNU2-22P PSMD1 ENSG00000224376
GH02F231544 1.2 Ensembl ENCODE 11.7 -62.0 -61960 3.2 HDGF TBP HDAC1 PKNOX1 TBL1XR1 BMI1 ZNF143 ETV6 CREM CBFB NMUR1 NCL RNU2-22P SNORA75 SNORD20 LINC00471 RPL21P35
GH02F231226 1.2 Ensembl ENCODE 10.8 +255.2 255185 3.0 ELF3 PKNOX1 WRNIP1 ARID4B SIN3A BMI1 ZSCAN9 ZNF2 RAD21 ZNF143 HTR2B ARMC9 ENSG00000233538 SNORA75 SNORD20 NCL RNU2-22P GC02P231263 GC02P231265 GC02P231258
GH02F231298 1 Ensembl ENCODE 9.7 +183.4 183441 2.8 ZFP64 ZNF140 ZNF101 EED ZNF433 ZNF680 MTA2 ZBTB11 REST ZBTB8A RPL28P2 HTR2B SNORA75 SNORD20 SPATA3 SPATA3-AS1 ENSG00000261096 NCL GC02P231324 GC02P231264
GH02F231425 0.7 ENCODE 10.4 +57.2 57238 2.1 MAX DPF2 EBF1 RARA GATA3 JUND CTBP1 SCRT2 IKZF1 RCOR1 B3GNT7 ENSG00000233538 SNORA75 SNORD20 ARMC9 NCL RNU2-22P HTR2B PSMD1 ZBTB8OSP2
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around NCL on UCSC Golden Path with GeneCards custom track

Promoters for NCL Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000125648 241 1601 SIN3A ARID4B DMAP1 ZNF48 ZNF2 RAD21 YY1 EGR1 ZNF143 ZNF207

Transcription factor binding sites by QIAGEN in the NCL gene promoter:

Genomic Location for NCL Gene

Chromosome:
2
Start:
231,453,531 bp from pter
End:
231,483,641 bp from pter
Size:
30,111 bases
Orientation:
Minus strand

Genomic View for NCL Gene

Genes around NCL on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NCL Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NCL Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NCL Gene

Proteins for NCL Gene

  • Protein details for NCL Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P19338-NUCL_HUMAN
    Recommended name:
    Nucleolin
    Protein Accession:
    P19338
    Secondary Accessions:
    • Q53SK1
    • Q8NB06
    • Q9UCF0
    • Q9UDG1

    Protein attributes for NCL Gene

    Size:
    710 amino acids
    Molecular mass:
    76614 Da
    Quaternary structure:
    • Identified in a IGF2BP1-dependent mRNP granule complex containing untranslated mRNAs (PubMed:17289661). Component of the SWAP complex that consists of NPM1, NCL/nucleolin, PARP1 and SWAP70 (By similarity). Component of a complex which is at least composed of HTATSF1/Tat-SF1, the P-TEFb complex components CDK9 and CCNT1, RNA polymerase II, SUPT5H, and NCL/nucleolin (PubMed:10393184). Interacts with AICDA (By similarity). Interacts with APTX (PubMed:15044383). Interacts with C1QBP (PubMed:21536856). Interacts with ERBB4 (PubMed:20858735). Interacts (via C-terminus) with FMR1 isoform 6 (via N-terminus) (PubMed:24658146). Interacts with GZF1; this interaction is important for nucleolar localization of GZF1 (PubMed:17674968). Interacts with NSUN2 (PubMed:17215513). Interacts with NVL (PubMed:21474449). Interacts (via N-terminus domain) with SETX (PubMed:21700224). Interacts (via RRM1 and C-terminal RRM4/Arg/Gly-rich domains) with TERT; the interaction is important for nucleolar localization of TERT (PubMed:15371412). Interacts with WDR46 (PubMed:23848194). Interacts with ZFP36 (PubMed:20221403).
    SequenceCaution:
    • Sequence=BAC03738.1; Type=Miscellaneous discrepancy; Note=Unlikely isoform. Aberrant splice sites.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for NCL Gene

neXtProt entry for NCL Gene

Post-translational modifications for NCL Gene

  • Some glutamate residues are glycylated by TTLL8. This modification occurs exclusively on glutamate residues and results in a glycine chain on the gamma-carboxyl group (By similarity).
  • Ubiquitination at Lys 324, Lys 333, Lys 370, Lys 467, Lys 513, Lys 572, and Lys 610
  • Modification sites at PhosphoSitePlus

Other Protein References for NCL Gene

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for NCL (NCL)

No data available for DME Specific Peptides for NCL Gene

Domains & Families for NCL Gene

Gene Families for NCL Gene

Suggested Antigen Peptide Sequences for NCL Gene

Graphical View of Domain Structure for InterPro Entry

P19338

UniProtKB/Swiss-Prot:

NUCL_HUMAN :
  • Contains 4 RRM (RNA recognition motif) domains.
Domain:
  • Contains 4 RRM (RNA recognition motif) domains.
genes like me logo Genes that share domains with NCL: view

Function for NCL Gene

Molecular function for NCL Gene

GENATLAS Biochemistry:
nucleolin,major multifunctional nucleolar protein of exponentially growing cells,characterized by unique tripartite function within each domain,performing activities i.e. a specific DNA helicase and DNA-dependent ATPase,also acting as a sequence-specific RNA binding protein an autoantigen,a component of B cell specific transcription factor,involved in ribosome biogenesis,cytokinesis,nucleogenesis,cell proliferation and growth,chromatin remodeling etc...
UniProtKB/Swiss-Prot Function:
Nucleolin is the major nucleolar protein of growing eukaryotic cells. It is found associated with intranucleolar chromatin and pre-ribosomal particles. It induces chromatin decondensation by binding to histone H1. It is thought to play a role in pre-rRNA transcription and ribosome assembly. May play a role in the process of transcriptional elongation. Binds RNA oligonucleotides with 5-UUAGGG-3 repeats more tightly than the telomeric single-stranded DNA 5-TTAGGG-3 repeats.

Gene Ontology (GO) - Molecular Function for NCL Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003723 RNA binding IDA 8321232
GO:0005515 protein binding IPI 12427757
genes like me logo Genes that share ontologies with NCL: view
genes like me logo Genes that share phenotypes with NCL: view

Animal Model Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for NCL

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NCL Gene

Localization for NCL Gene

Subcellular locations from UniProtKB/Swiss-Prot for NCL Gene

Nucleus, nucleolus. Cytoplasm. Note=Localized in cytoplasmic mRNP granules containing untranslated mRNAs.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NCL gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 3
plasma membrane 2
cytoskeleton 2

Gene Ontology (GO) - Cellular Components for NCL Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 15121898
GO:0005654 nucleoplasm IEA,IDA 23353999
GO:0005730 nucleolus IDA 12944467
GO:0005737 cytoplasm IEA --
GO:0005938 cell cortex IDA 16403913
genes like me logo Genes that share ontologies with NCL: view

Pathways & Interactions for NCL Gene

genes like me logo Genes that share pathways with NCL: view

Pathways by source for NCL Gene

1 KEGG pathway for NCL Gene
1 GeneGo (Thomson Reuters) pathway for NCL Gene

Gene Ontology (GO) - Biological Process for NCL Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001525 angiogenesis IDA 16403913
GO:0045944 positive regulation of transcription from RNA polymerase II promoter IEA --
GO:0071364 cellular response to epidermal growth factor stimulus IEA --
GO:1901838 positive regulation of transcription of nuclear large rRNA transcript from RNA polymerase I promoter IMP 24071584
genes like me logo Genes that share ontologies with NCL: view

No data available for SIGNOR curated interactions for NCL Gene

Drugs & Compounds for NCL Gene

(19) Drugs for NCL Gene - From: DGIdb and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
AS1411 Pharma 0
IPP-204106 Pharma 0

(14) Additional Compounds for NCL Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with NCL: view

Transcripts for NCL Gene

Unigene Clusters for NCL Gene

Nucleolin:
Representative Sequences:

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for NCL

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for NCL Gene

ExUns: 1 ^ 2 ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8a · 8b · 8c · 8d · 8e ^ 9a · 9b · 9c ^ 10 ^ 11a · 11b ^ 12a · 12b ^ 13a · 13b · 13c ^
SP1: - - - - - - -
SP2: - - - - - - - - - - - - - -
SP3:
SP4: -
SP5: - - - - - - - - - - - - - - - - -
SP6: - - - - - - - - - - -
SP7:
SP8:
SP9:
SP10:
SP11: - - - - -
SP12: - -
SP13: - - -
SP14: -
SP15:
SP16: - - - - - - - - -

ExUns: 14 ^ 15a · 15b ^ 16 ^ 17a · 17b ^ 18a · 18b ^ 19a · 19b · 19c · 19d ^ 20a · 20b · 20c
SP1: - -
SP2:
SP3: -
SP4: - - - - - - - -
SP5:
SP6:
SP7: - - -
SP8: -
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:
SP15:
SP16:

Relevant External Links for NCL Gene

GeneLoc Exon Structure for
NCL
ECgene alternative splicing isoforms for
NCL

Expression for NCL Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for NCL Gene

Protein differential expression in normal tissues from HIPED for NCL Gene

This gene is overexpressed in Tlymphocyte (6.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NCL Gene



Protein tissue co-expression partners for NCL Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of NCL Gene:

NCL

SOURCE GeneReport for Unigene cluster for NCL Gene:

Hs.79110
genes like me logo Genes that share expression patterns with NCL: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for NCL Gene

Orthologs for NCL Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for NCL Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NCL 34 35
  • 99.54 (n)
dog
(Canis familiaris)
Mammalia NCL 34 35
  • 90.4 (n)
cow
(Bos Taurus)
Mammalia NCL 34 35 35
  • 88.41 (n)
rat
(Rattus norvegicus)
Mammalia Ncl 34
  • 88.2 (n)
mouse
(Mus musculus)
Mammalia Ncl 34 16 35
  • 87.67 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia NCL 35
  • 73 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia NCL 35
  • 72 (a)
OneToOne
chicken
(Gallus gallus)
Aves NCL 35
  • 59 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia NCL 35
  • 58 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.10165 34
African clawed frog
(Xenopus laevis)
Amphibia LOC397919 34
zebrafish
(Danio rerio)
Actinopterygii ncl 35
  • 50 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes NSR1 35
  • 32 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8423 35
  • 36 (a)
OneToOne
Species where no ortholog for NCL was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for NCL Gene

ENSEMBL:
Gene Tree for NCL (if available)
TreeFam:
Gene Tree for NCL (if available)

Paralogs for NCL Gene

Paralogs for NCL Gene

(4) SIMAP similar genes for NCL Gene using alignment to 8 proteins:

Pseudogenes.org Pseudogenes for NCL Gene

genes like me logo Genes that share paralogs with NCL: view

Variants for NCL Gene

Sequence variations from dbSNP and Humsavar for NCL Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs10202701 -- 231,463,970(+) GGACC(C/T)ACGCG intron-variant
rs111323200 -- 231,454,749(+) CACGT(C/T)TGGCA utr-variant-3-prime
rs111373950 -- 231,465,291(+) ATGCG(A/C)CAATT upstream-variant-2KB
rs111706495 -- 231,457,324(+) TTACA(C/G/T)AGGCT intron-variant, upstream-variant-2KB
rs111715301 -- 231,455,356(+) GGGTC(C/T)GAAGA intron-variant, downstream-variant-500B

Structural Variations from Database of Genomic Variants (DGV) for NCL Gene

Variant ID Type Subtype PubMed ID
esv3306627 CNV mobile element insertion 20981092
esv3423511 CNV insertion 20981092
nsv819681 CNV loss 19587683
nsv834567 CNV gain 17160897

Variation tolerance for NCL Gene

Residual Variation Intolerance Score: 12.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.31; 41.24% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NCL Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NCL

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NCL Gene

Disorders for NCL Gene

Relevant External Links for NCL

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NCL

No disorders were found for NCL Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NCL Gene

Publications for NCL Gene

  1. Nucleolin modulates the subcellular localization of GDNF-inducible zinc finger protein 1 and its roles in transcription and cell proliferation. (PMID: 17674968) Dambara A. … Takahashi M. (Exp. Cell Res. 2007) 3 4 22 64
  2. Nucleolin interacts with telomerase. (PMID: 15371412) Khurts S. … Murakami S. (J. Biol. Chem. 2004) 3 4 22 64
  3. Genomic organization and chromosomal localization of the human nucleolin gene. (PMID: 2394707) Srivastava M. … Burns A.L. (J. Biol. Chem. 1990) 2 3 4 64
  4. Subcellular fractionation and localization studies reveal a direct interaction of the fragile X mental retardation protein (FMRP) with nucleolin. (PMID: 24658146) Taha M.S. … Ahmadian M.R. (PLoS ONE 2014) 3 4 64
  5. Structure and function of the N-terminal nucleolin binding domain of nuclear valosin-containing protein-like 2 (NVL2) harboring a nucleolar localization signal. (PMID: 21474449) Fujiwara Y. … Hiroaki H. (J. Biol. Chem. 2011) 3 4 64

Products for NCL Gene

Sources for NCL Gene

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