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    NCBP1 nuclear cap binding protein subunit 1 [ Homo sapiens (human) ]

    Gene ID: 4686, updated on 21-Dec-2019

    Summary

    Official Symbol
    NCBP1provided by HGNC
    Official Full Name
    nuclear cap binding protein subunit 1provided by HGNC
    Primary source
    HGNC:HGNC:7658
    See related
    Ensembl:ENSG00000136937 MIM:600469
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    NCBP; Sto1; CBP80
    Summary
    The product of this gene is a component of the nuclear cap-binding protein complex (CBC), which binds to the monomethylated 5' cap of nascent pre-mRNA in the nucleoplasm. The encoded protein promotes high-affinity mRNA-cap binding and associates with the CTD of RNA polymerase II. The CBC promotes pre-mRNA splicing, 3'-end processing, RNA nuclear export, and nonsense-mediated mRNA decay. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in testis (RPKM 9.3), lymph node (RPKM 7.9) and 25 other tissues See more
    Orthologs

    Genomic context

    See NCBP1 in Genome Data Viewer
    Location:
    9q22.33
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    109.20191205 current GRCh38.p13 (GCF_000001405.39) 9 NC_000009.12 (97633423..97673748)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (100395705..100436030)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105376168 Neighboring gene tropomodulin 1 Neighboring gene Sharpr-MPRA regulatory region 9871 Neighboring gene thiosulfate sulfurtransferase like domain containing 2 Neighboring gene uncharacterized LOC105376171 Neighboring gene XPA, DNA damage recognition and repair factor Neighboring gene keratin 18 pseudogene 13 Neighboring gene papillary thyroid carcinoma susceptibility candidate 2 Neighboring gene VISTA enhancer hs1595

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    NHGRI GWAS Catalog

    Description
    The FOXE1 locus is a major genetic determinant for radiation-related thyroid carcinoma in Chernobyl.
    NHGRI GWA Catalog

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC2087

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    RNA 7-methylguanosine cap binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    RNA binding HDA PubMed 
    RNA cap binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    7-methylguanosine mRNA capping IDA
    Inferred from Direct Assay
    more info
    PubMed 
    7-methylguanosine mRNA capping TAS
    Traceable Author Statement
    more info
     
    RNA catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    RNA export from nucleus TAS
    Traceable Author Statement
    more info
     
    RNA metabolic process TAS
    Traceable Author Statement
    more info
     
    RNA splicing TAS
    Traceable Author Statement
    more info
    PubMed 
    fibroblast growth factor receptor signaling pathway TAS
    Traceable Author Statement
    more info
     
    gene silencing by RNA IEA
    Inferred from Electronic Annotation
    more info
     
    histone mRNA metabolic process TAS
    Traceable Author Statement
    more info
     
    mRNA 3'-end processing TAS
    Traceable Author Statement
    more info
     
    mRNA cis splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
     
    mRNA export from nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    mRNA export from nucleus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    mRNA export from nucleus TAS
    Traceable Author Statement
    more info
     
    mRNA splicing, via spliceosome TAS
    Traceable Author Statement
    more info
     
    nuclear export TAS
    Traceable Author Statement
    more info
     
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay TAS
    Traceable Author Statement
    more info
     
    positive regulation of RNA binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of cell growth IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of mRNA 3'-end processing IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of mRNA splicing, via spliceosome IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    pre-mRNA cleavage required for polyadenylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    NOT regulation of mRNA polyadenylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of mRNA processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    regulation of translational initiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    snRNA transcription by RNA polymerase II TAS
    Traceable Author Statement
    more info
     
    spliceosomal complex assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    termination of RNA polymerase II transcription TAS
    Traceable Author Statement
    more info
     
    transcription by RNA polymerase II TAS
    Traceable Author Statement
    more info
     
    transcription elongation from RNA polymerase II promoter TAS
    Traceable Author Statement
    more info
     
    Component Evidence Code Pubs
    RNA cap binding complex IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    RNA cap binding complex TAS
    Traceable Author Statement
    more info
    PubMed 
    cytosol IDA
    Inferred from Direct Assay
    more info
     
    cytosol TAS
    Traceable Author Statement
    more info
     
    mRNA cap binding complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    mRNA cap binding complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    mitochondrion IDA
    Inferred from Direct Assay
    more info
     
    nuclear cap binding complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    nucleoplasm TAS
    Traceable Author Statement
    more info
     
    nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    ribonucleoprotein complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    nuclear cap-binding protein subunit 1
    Names
    80 kDa nuclear cap-binding protein
    NCBP 80 kDa subunit
    nuclear cap binding protein subunit 1, 80kDa

    NCBI Reference Sequences (RefSeq)

    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_001351504.1NP_001338433.1  nuclear cap-binding protein subunit 1 isoform 2

      Status: REVIEWED

      Source sequence(s)
      AL445531, BC001450, CA418527, DA885233, DB086376
      Conserved Domains (3) summary
      smart00543
      Location:9173
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam09088
      Location:284403
      MIF4G_like; MIF4G like
      pfam09090
      Location:418692
      MIF4G_like_2; MIF4G like
    2. NM_001351505.1NP_001338434.1  nuclear cap-binding protein subunit 1 isoform 3

      Status: REVIEWED

      Source sequence(s)
      AL445531, BC001450, CA418527, CN266899, DB086376
      Conserved Domains (2) summary
      pfam09088
      Location:161280
      MIF4G_like; MIF4G like
      pfam09090
      Location:295569
      MIF4G_like_2; MIF4G like
    3. NM_001351506.1NP_001338435.1  nuclear cap-binding protein subunit 1 isoform 3

      Status: REVIEWED

      Source sequence(s)
      AL445531, BC001450, CA418527, CN266899, DA885233, DB086376
      Conserved Domains (2) summary
      pfam09088
      Location:161280
      MIF4G_like; MIF4G like
      pfam09090
      Location:295569
      MIF4G_like_2; MIF4G like
    4. NM_001351507.1NP_001338436.1  nuclear cap-binding protein subunit 1 isoform 4

      Status: REVIEWED

      Source sequence(s)
      AL445531, BC001450, CA418527, DB086376
      Conserved Domains (2) summary
      pfam09088
      Location:2100
      MIF4G_like; MIF4G like
      pfam09090
      Location:115389
      MIF4G_like_2; MIF4G like
    5. NM_002486.5NP_002477.1  nuclear cap-binding protein subunit 1 isoform 1

      See identical proteins and their annotated locations for NP_002477.1

      Status: REVIEWED

      Source sequence(s)
      AL445531, BC001450, CA418527
      Consensus CDS
      CCDS6728.1
      UniProtKB/Swiss-Prot
      Q09161
      UniProtKB/TrEMBL
      A0A024R179
      Related
      ENSP00000364289.3, ENST00000375147.8
      Conserved Domains (3) summary
      smart00543
      Location:28240
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam09088
      Location:351470
      MIF4G_like; MIF4G like
      pfam09090
      Location:485759
      MIF4G_like_2; MIF4G like

    RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000009.12 Reference GRCh38.p13 Primary Assembly

      Range
      97633423..97673748
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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