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Aliases for NCL Gene

Aliases for NCL Gene

  • Nucleolin 2 3 3 5
  • Protein C23 4
  • Nsr1 3
  • 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 Translational Control and Aurora B signaling. GO annotations related to this gene include nucleic acid binding and identical protein binding.

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

Additional gene information for NCL Gene

No data available for CIViC summary , 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
GH02H231785 1.2 ENCODE 51.2 -302.8 -302829 1 ZFP64 FEZF1 DMAP1 YY1 ZNF416 ZNF143 ZNF548 SP3 NFYC ZC3H11A DIS3L2 RPL28P2 GIGYF2 NCL RPL23AP26 ENSG00000233538 ENSG00000261096 ENSG00000251485 COPS7B LOC100289360
GH02H230863 1.6 Ensembl ENCODE dbSUPER 30.7 +614.0 614030 11 PKNOX1 ARNT ARID4B DMAP1 ZNF143 SP3 ZHX2 REST ZNF662 KAT8 RPL28P2 NCL ENSG00000261096 COPS7B LINC00471 ENSG00000230385 SPATA3 SPATA3-AS1 PSMD1 ITM2C
GH02H231660 2.6 VISTA FANTOM5 Ensembl ENCODE dbSUPER 14.8 -180.9 -180890 7 HDGF PKNOX1 ARID4B SIN3A DMAP1 ZBTB7B YY1 SLC30A9 ZNF207 ZNF143 DIS3L2 RPL28P2 NCL GC02M231678 RN7SL499P
GH02H231713 1.9 FANTOM5 Ensembl ENCODE dbSUPER 18.1 -232.2 -232163 4 HDGF PKNOX1 FOXA2 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 SLC30A9 GIGYF2 NCL RPL28P2 DIS3L2 PTMA MIR1244-1 GC02M231725
GH02H231407 1.9 FANTOM5 Ensembl ENCODE dbSUPER 10.5 +72.2 72193 9 MLX ARID4B SIN3A DMAP1 ZNF2 YY1 GLIS2 CBX5 ZNF143 RUNX3 B3GNT7 ARMC9 ENSG00000233538 SNORA75 SNORD20 HTR2B NCL RNU2-22P PSMD1 ENSG00000224376
- 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
ENSR00000131830 141 1401 TBL1XR1 RB1 SIN3A ARID4B DMAP1 ZNF2 RAD21 YY1 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 posLast=324324, Lys333, Lys370, Lys467, posLast=513513, Lys572, and Lys610
  • 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

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for NCL Gene

Graphical View of Domain Structure for InterPro Entry

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

No data available for UniProtKB/Swiss-Prot for NCL Gene

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.

Phenotypes From GWAS Catalog for NCL Gene

Gene Ontology (GO) - Molecular Function for NCL Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003723 RNA binding IEA,IDA 8321232
GO:0005515 protein binding IPI 9512561
GO:0008022 protein C-terminus binding IPI 16403913
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

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for NCL
  • Applied Biological Materials Clones for NCL
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli (4)
  • Nucleus (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for NCL Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 15121898
GO:0005654 nucleoplasm 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:0017148 negative regulation of translation IMP 16213212
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

(20) 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

(13) 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:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for NCL
  • Applied Biological Materials Clones for NCL
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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 CGAP 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

Evidence on tissue expression from TISSUES for NCL Gene

  • Skin(4.9)
  • Liver(4.8)
  • Nervous system(4.8)
  • Eye(4.4)
  • Intestine(4.4)
  • Heart(3.6)
  • Lung(3.6)
  • Kidney(3.5)
  • Muscle(3.4)
  • Adrenal gland(3)
  • Blood(3)
  • Bone marrow(3)
  • Gall bladder(3)
  • Lymph node(3)
  • Pancreas(3)
  • Spleen(3)
  • Stomach(3)
  • Thyroid gland(3)
genes like me logo Genes that share expression patterns with NCL: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer 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 33 34
  • 99.54 (n)
dog
(Canis familiaris)
Mammalia NCL 33 34
  • 90.4 (n)
cow
(Bos Taurus)
Mammalia NCL 33 34 34
  • 88.41 (n)
rat
(Rattus norvegicus)
Mammalia Ncl 33
  • 88.2 (n)
mouse
(Mus musculus)
Mammalia Ncl 33 16 34
  • 87.67 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia NCL 34
  • 73 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia NCL 34
  • 72 (a)
OneToOne
chicken
(Gallus gallus)
Aves NCL 34
  • 59 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia NCL 34
  • 58 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.10165 33
African clawed frog
(Xenopus laevis)
Amphibia LOC397919 33
zebrafish
(Danio rerio)
Actinopterygii ncl 34
  • 50 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes NSR1 34
  • 32 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8423 34
  • 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

(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

No data available for Paralogs for NCL Gene

Variants for NCL Gene

Sequence variations from dbSNP and Humsavar for NCL Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs1000048639 -- 231,461,769(+) GGGAT(A/G)GCAGC reference, synonymous-codon
rs1000334470 -- 231,458,013(+) AAAGA(A/G)CTGCT intron-variant, upstream-variant-2KB
rs1000589059 -- 231,462,995(+) AGAAA(C/T)TCCCA intron-variant
rs1000961296 -- 231,462,781(+) CACAG(G/T)GAGTA intron-variant
rs1001034182 -- 231,463,461(+) AACTA(A/C)TCCTG intron-variant

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 (Experimental cell research 2007) 3 4 22 60
  2. Nucleolin interacts with telomerase. (PMID: 15371412) Khurts S … Murakami S (The Journal of biological chemistry 2004) 3 4 22 60
  3. Genomic organization and chromosomal localization of the human nucleolin gene. (PMID: 2394707) Srivastava M … Burns AL (The Journal of biological chemistry 1990) 2 3 4 60
  4. Subcellular fractionation and localization studies reveal a direct interaction of the fragile X mental retardation protein (FMRP) with nucleolin. (PMID: 24658146) Taha MS … Ahmadian MR (PloS one 2014) 3 4 60
  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 (The Journal of biological chemistry 2011) 3 4 60

Products for NCL Gene

  • Addgene plasmids for NCL

Sources for NCL Gene

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