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

Gene ID: 4686, updated on 5-Jul-2020

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
109.20200522 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 IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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.

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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