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Aliases for NCBP3 Gene

Aliases for NCBP3 Gene

  • Nuclear Cap Binding Subunit 3 2 3 5
  • C17orf85 3 4
  • Nuclear Cap-Binding Protein Subunit 3 3
  • Chromosome 17 Open Reading Frame 85 2
  • CTD-3195I5.1 3
  • CTD-3195I5.5 3
  • ELG Protein 2
  • Protein ELG 4
  • HSA277841 3
  • ELG 3

External Ids for NCBP3 Gene

Previous HGNC Symbols for NCBP3 Gene

  • C17orf85

Summaries for NCBP3 Gene

GeneCards Summary for NCBP3 Gene

NCBP3 (Nuclear Cap Binding Subunit 3) is a Protein Coding gene. Diseases associated with NCBP3 include Vertebral Artery Insufficiency.

UniProtKB/Swiss-Prot for NCBP3 Gene

  • Associates with NCBP1/CBP80 to form an alternative cap-binding complex (CBC) which plays a key role in mRNA export. NCBP3 serves as adapter protein linking the capped RNAs (m7GpppG-capped RNA) to NCBP1/CBP80. Unlike the conventional CBC with NCBP2 which binds both small nuclear RNA (snRNA) and messenger (mRNA) and is involved in their export from the nucleus, the alternative CBC with NCBP3 does not bind snRNA and associates only with mRNA thereby playing a role in only mRNA export. The alternative CBC is particularly important in cellular stress situations such as virus infections and the NCBP3 activity is critical to inhibit virus growth (PubMed:26382858).

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NCBP3 Gene

Genomics for NCBP3 Gene

Regulatory Elements for NCBP3 Gene

Enhancers for NCBP3 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
GH17F003885 1.5 FANTOM5 ENCODE 11.6 -44.3 -44286 10.9 HDGF PKNOX1 CREB3L1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZNF302 ZNF416 P2RX1 OR1E2 OR3A4P OR1D2 OR1E3 OR1D3P OR1D5 CAMKK1 SHPK NCBP3
GH17F003790 1.5 FANTOM5 Ensembl ENCODE 11.5 +55.0 54951 2.2 PKNOX1 SIN3A FEZF1 ZBTB40 ZNF335 GLIS2 ZNF207 ETV6 FOS CREM GSG2 NCBP3 EMC6 TAX1BP3 CTNS ZZEF1 P2RX1 ITGAE ENSG00000262358
GH17F003808 0.9 ENCODE 17.7 +37.2 37224 1.5 HDAC1 HDGF ZNF121 ZNF362 TBX21 SMARCA4 IKZF1 NBN KDM1A MGA NCBP3 GSG2 CAMKK1 GC17M003807 GC17M003810 PIR46371
GH17F003959 1.4 FANTOM5 ENCODE 10.7 -117.3 -117318 9.0 HDGF ARID4B SIN3A YY1 SLC30A9 ZNF121 GLIS2 ZNF143 KLF7 FOS ZZEF1 NCBP3 CYB5D2 ATP2A3 LINC01975 P2RX1 CTNS GC17P003938
GH17F003749 1.3 FANTOM5 Ensembl ENCODE 11.2 +95.6 95561 2.2 HDGF PKNOX1 MAZ BHLHE40 EBF1 TBX21 EP300 ZFHX2 POLR2A IKZF1 GSG2 P2RX5 NCBP3 OR1E2 OR3A2 ATP2A3 ENSG00000262358 ITGAE
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around NCBP3 on UCSC Golden Path with GeneCards custom track

Promoters for NCBP3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001339350 351 1801 HDGF CREB3L1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF416 ZNF207

Genomic Location for NCBP3 Gene

Chromosome:
17
Start:
3,802,160 bp from pter
End:
3,846,251 bp from pter
Size:
44,092 bases
Orientation:
Minus strand

Genomic View for NCBP3 Gene

Genes around NCBP3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NCBP3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NCBP3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NCBP3 Gene

Proteins for NCBP3 Gene

  • Protein details for NCBP3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q53F19-NCBP3_HUMAN
    Recommended name:
    Nuclear cap-binding protein subunit 3
    Protein Accession:
    Q53F19
    Secondary Accessions:
    • B3KWG7
    • Q7L406
    • Q96FK1
    • Q9NXZ4

    Protein attributes for NCBP3 Gene

    Size:
    620 amino acids
    Molecular mass:
    70593 Da
    Quaternary structure:
    • Component of an alternative cap-binding complex (CBC) composed of NCBP1/CBP80 and NCBP3. Interacts with SRRT, KPNA3, THOC5 and EIF4A3.
    SequenceCaution:
    • Sequence=BAD97190.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for NCBP3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NCBP3 Gene

Post-translational modifications for NCBP3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for NCBP3 Gene

Domains & Families for NCBP3 Gene

Protein Domains for NCBP3 Gene

Suggested Antigen Peptide Sequences for NCBP3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q53F19

UniProtKB/Swiss-Prot:

NCBP3_HUMAN :
  • Belongs to the NCBP3 family.
Family:
  • Belongs to the NCBP3 family.
genes like me logo Genes that share domains with NCBP3: view

No data available for Gene Families for NCBP3 Gene

Function for NCBP3 Gene

Molecular function for NCBP3 Gene

UniProtKB/Swiss-Prot Function:
Associates with NCBP1/CBP80 to form an alternative cap-binding complex (CBC) which plays a key role in mRNA export. NCBP3 serves as adapter protein linking the capped RNAs (m7GpppG-capped RNA) to NCBP1/CBP80. Unlike the conventional CBC with NCBP2 which binds both small nuclear RNA (snRNA) and messenger (mRNA) and is involved in their export from the nucleus, the alternative CBC with NCBP3 does not bind snRNA and associates only with mRNA thereby playing a role in only mRNA export. The alternative CBC is particularly important in cellular stress situations such as virus infections and the NCBP3 activity is critical to inhibit virus growth (PubMed:26382858).

Gene Ontology (GO) - Molecular Function for NCBP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0000339 RNA cap binding IEA --
GO:0000340 RNA 7-methylguanosine cap binding IEA,IMP 26382858
GO:0003723 RNA binding IEA --
GO:0003729 mRNA binding IEA,IDA 26382858
genes like me logo Genes that share ontologies with NCBP3: view
genes like me logo Genes that share phenotypes with NCBP3: view

Animal Models for NCBP3 Gene

MGI Knock Outs for NCBP3:

Animal Model Products

miRNA for NCBP3 Gene

miRTarBase miRNAs that target NCBP3

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for NCBP3 Gene

Localization for NCBP3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NCBP3 Gene

Nucleus. Cytoplasm.

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 NCBP3 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for NCBP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 26382858
GO:0005737 cytoplasm IEA,IDA 26382858
GO:0034518 RNA cap binding complex TAS 26382858
genes like me logo Genes that share ontologies with NCBP3: view

Pathways & Interactions for NCBP3 Gene

SuperPathways for NCBP3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for NCBP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006370 7-methylguanosine mRNA capping IEA --
GO:0006397 mRNA processing IEA --
GO:0006810 transport IEA --
GO:0051028 mRNA transport IEA --
GO:0051607 defense response to virus IMP 26382858
genes like me logo Genes that share ontologies with NCBP3: view

No data available for Pathways by source and SIGNOR curated interactions for NCBP3 Gene

Transcripts for NCBP3 Gene

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for NCBP3 Gene

No ASD Table

Relevant External Links for NCBP3 Gene

GeneLoc Exon Structure for
NCBP3
ECgene alternative splicing isoforms for
NCBP3

Expression for NCBP3 Gene

NURSA nuclear receptor signaling pathways regulating expression of NCBP3 Gene:

NCBP3
No Expression Related Data Available

Primer Products

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for NCBP3 Gene

Orthologs for NCBP3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for NCBP3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia C17orf85 35
  • 100 (a)
OneToOne
C17H17orf85 34
  • 99.5 (n)
cow
(Bos Taurus)
Mammalia C17orf85 35
  • 95 (a)
OneToOne
C19H17orf85 34
  • 90.94 (n)
dog
(Canis familiaris)
Mammalia C9H17orf85 34
  • 92.4 (n)
C17orf85 35
  • 90 (a)
OneToOne
mouse
(Mus musculus)
Mammalia 1200014J11Rik 34 35
  • 89.63 (n)
Ncbp3 16
rat
(Rattus norvegicus)
Mammalia RGD1308139 34
  • 88.13 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia C17orf85 35
  • 81 (a)
OneToOne
chicken
(Gallus gallus)
Aves C19H17ORF85 34 35
  • 76.73 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia c17orf85 34
  • 68.63 (n)
Str.1399 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.33463 34
zebrafish
(Danio rerio)
Actinopterygii zgc:55870 34
  • 63.87 (n)
C21H17orf85 35
  • 55 (a)
OneToOne
zgc55870 34
Species where no ortholog for NCBP3 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)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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 NCBP3 Gene

ENSEMBL:
Gene Tree for NCBP3 (if available)
TreeFam:
Gene Tree for NCBP3 (if available)

Paralogs for NCBP3 Gene

No data available for Paralogs for NCBP3 Gene

Variants for NCBP3 Gene

Sequence variations from dbSNP and Humsavar for NCBP3 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs1047463 -- 3,806,830(-) CCAGG(A/C)AGATT utr-variant-3-prime
rs10579681 -- 3,848,104(+) TGTGT(-/GTGT)TTAAT upstream-variant-2KB
rs1062347 -- 3,823,689(-) ttgca(A/G)cgctt intron-variant
rs11078467 -- 3,841,782(+) gagcc(A/G)tgatc intron-variant
rs11078468 -- 3,847,107(+) TTTCT(C/G)TTTTC upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for NCBP3 Gene

Variant ID Type Subtype PubMed ID
nsv955403 CNV deletion 24416366
nsv833343 CNV loss 17160897
nsv520428 CNV gain 19592680
nsv512472 CNV loss 21212237
nsv477983 CNV novel sequence insertion 20440878
nsv474445 CNV novel sequence insertion 20440878
nsv469791 CNV loss 16826518
nsv1065489 CNV gain 25217958
nsv1055740 CNV gain 25217958
esv3639755 CNV loss 21293372
esv2761940 CNV gain 21179565
esv2715532 CNV deletion 23290073
esv2672645 CNV deletion 23128226
esv2658361 CNV deletion 23128226
dgv170e215 CNV deletion 23714750
dgv1407n106 CNV deletion 24896259

Variation tolerance for NCBP3 Gene

Residual Variation Intolerance Score: 58.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.93; 67.84% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NCBP3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NCBP3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NCBP3 Gene

Disorders for NCBP3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for NCBP3 Gene - From: DISEASES

Disorder Aliases PubMed IDs
vertebral artery insufficiency
  • vertebral artery syndrome
- elite association - COSMIC cancer census association via MalaCards
Search NCBP3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for NCBP3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NCBP3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NCBP3
genes like me logo Genes that share disorders with NCBP3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for NCBP3 Gene

Publications for NCBP3 Gene

  1. mRNA export through an additional cap-binding complex consisting of NCBP1 and NCBP3. (PMID: 26382858) Gebhardt A. … Pichlmair A. (Nat Commun 2015) 2 3 4 64
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  3. Studies on transcriptional regulation of the mucosal T-cell integrin alphaEbeta7 (CD103). (PMID: 11412301) Robinson P.W. … Kilshaw P.J. (Immunology 2001) 2 3 64
  4. Interactions of the Antiviral Factor Interferon Gamma-Inducible Protein 16 (IFI16) Mediate Immune Signaling and Herpes Simplex Virus-1 Immunosuppression. (PMID: 25693804) Diner B.A. … Cristea I.M. (Mol. Cell Proteomics 2015) 3 64
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64

Products for NCBP3 Gene

Sources for NCBP3 Gene

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