Ncbp1 nuclear cap binding protein subunit 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ncbp1provided by MGI
Official Full Name: nuclear cap binding protein subunit 1provided by MGI
Primary source: MGI:MGI:1891840
See related: Ensembl:ENSMUSG00000028330 AllianceGenome:MGI:1891840
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: CBP80
Summary: Predicted to enable RNA 7-methylguanosine cap binding activity and mRNA binding activity. Predicted to be involved in several processes, including mRNA export from nucleus; mRNA metabolic process; and positive regulation of mRNA processing. Predicted to act upstream of or within RNA processing and regulation of gene expression. Predicted to be located in cytosol; mitochondrion; and nucleoplasm. Predicted to be part of mRNA cap binding activity complex; nuclear cap binding activity complex; and ribonucleoprotein complex. Predicted to be active in nucleus. Is expressed in cerebellum granule cell layer; ovary; seminiferous tubule; spermatocyte; and spermatogonium. Orthologous to human NCBP1 (nuclear cap binding protein subunit 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in testis adult (RPKM 41.1), CNS E11.5 (RPKM 35.1) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 4 B1; 4 24.49 cM

Exon count:: 23

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	4	NC_000070.7 (46138732..46172403)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	4	NC_000070.6 (46138511..46172403)

Chromosome 4 - NC_000070.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Study proposes the existence of an alternative cap-binding complex involving NCBP1 and NCBP3 that plays a key role in mRNA biogenesis.
Title: mRNA export through an additional cap-binding complex consisting of NCBP1 and NCBP3.

Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (3)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA 7-methylguanosine cap binding	ISO Inferred from Sequence Orthology more info
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA cap binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables molecular adaptor activity	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in 7-methylguanosine mRNA capping	ISO Inferred from Sequence Orthology more info
involved_in RNA catabolic process	ISO Inferred from Sequence Orthology more info
involved_in RNA metabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in alternative mRNA splicing, via spliceosome	NAS Non-traceable Author Statement more info	PubMed
involved_in cap-dependent translational initiation	NAS Non-traceable Author Statement more info	PubMed
involved_in defense response to virus	ISO Inferred from Sequence Orthology more info
involved_in histone mRNA metabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in histone mRNA metabolic process	ISO Inferred from Sequence Orthology more info
involved_in mRNA 3'-end processing	NAS Non-traceable Author Statement more info	PubMed
involved_in mRNA export from nucleus	IBA Inferred from Biological aspect of Ancestor more info
involved_in mRNA export from nucleus	ISO Inferred from Sequence Orthology more info
involved_in mRNA metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in mRNA splicing, via spliceosome	NAS Non-traceable Author Statement more info	PubMed
involved_in mRNA transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in mRNA transcription by RNA polymerase II	NAS Non-traceable Author Statement more info	PubMed
acts_upstream_of_or_within mRNA transport	IEA Inferred from Electronic Annotation more info
involved_in miRNA-mediated post-transcriptional gene silencing	NAS Non-traceable Author Statement more info	PubMed
involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	ISO Inferred from Sequence Orthology more info
involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	NAS Non-traceable Author Statement more info	PubMed
involved_in positive regulation of RNA binding	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell growth	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mRNA 3'-end processing	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription elongation by RNA polymerase II	NAS Non-traceable Author Statement more info	PubMed
involved_in primary miRNA processing	NAS Non-traceable Author Statement more info	PubMed
involved_in regulation of mRNA processing	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of translation	IEA Inferred from Electronic Annotation more info
involved_in regulation of translational initiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulatory ncRNA-mediated gene silencing	IEA Inferred from Electronic Annotation more info
involved_in regulatory ncRNA-mediated post-transcriptional gene silencing	NAS Non-traceable Author Statement more info	PubMed
involved_in snRNA export from nucleus	ISO Inferred from Sequence Orthology more info
involved_in snRNA export from nucleus	NAS Non-traceable Author Statement more info	PubMed
involved_in spliceosomal complex assembly	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of RNA cap binding complex	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	NAS Non-traceable Author Statement more info	PubMed
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
part_of nuclear cap binding complex	IBA Inferred from Biological aspect of Ancestor more info
part_of nuclear cap binding complex	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of ribonucleoprotein complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: nuclear cap-binding protein subunit 1

Names: 80 kDa nuclear cap-binding protein; NCBP 80 kDa subunit

NCBI Reference Sequences (RefSeq)

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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)

NM_001033201.4 → NP_001028373.2 nuclear cap-binding protein subunit 1 isoform 1

See identical proteins and their annotated locations for NP_001028373.2

Status: VALIDATED

Source sequence(s)

AL732615, AL929438

Consensus CDS

CCDS18145.1

UniProtKB/Swiss-Prot

B1AWH4, Q3TEM1, Q3UYV9, Q7TNE8

Related

ENSMUSP00000030014.9, ENSMUST00000030014.9

Conserved Domains (3) summary

smart00543
Location:28 → 240

MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)

pfam09088
Location:351 → 470

MIF4G_like; MIF4G like

pfam09090
Location:485 → 759

MIF4G_like_2; MIF4G like
NM_001425040.1 → NP_001411969.1 nuclear cap-binding protein subunit 1 isoform 2

Status: VALIDATED

Source sequence(s)

AL732615, AL929438
NM_001425041.1 → NP_001411970.1 nuclear cap-binding protein subunit 1 isoform 3

Status: VALIDATED

Source sequence(s)

AL732615, AL929438

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000070.7 Reference GRCm39 C57BL/6J

Range

46138732..46172403

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017320296.3 → XP_017175785.1 nuclear cap-binding protein subunit 1 isoform X1

Conserved Domains (3) summary

pfam02854
Location:3 → 133

MIF4G; MIF4G domain

pfam09088
Location:244 → 363

MIF4G_like; MIF4G like

pfam09090
Location:378 → 653

MIF4G_like_2; MIF4G like