Ncbp1 nuclear cap binding protein subunit 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ncbp1provided by RGD
Official Full Name: nuclear cap binding protein subunit 1provided by RGD
Primary source: RGD:1308973
See related: Ensembl:ENSRNOG00000023605 AllianceGenome:RGD:1308973
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
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. Located in nucleus. Part of nuclear cap binding activity complex. Orthologous to human NCBP1 (nuclear cap binding protein subunit 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 305.3), Thymus (RPKM 221.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q22

Exon count:: 23

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (65211632..65244532)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (60416023..60449004)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (61734118..61767098)

Chromosome 5 - NC_086023.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Results describe a novel mRNP complex, containing LSm1 and CBP80, that is found in neuronal dendrites throughout the central nervous system and in some axonal processes of the spinal cord.
Title: Dendritic LSm1/CBP80-mRNPs mark the early steps of transport commitment and translational control.

Submit: New GeneRIF Correction

General gene information

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Markers

BE108357 (e-PCR)
- UniSTS:247737

RH130418 (e-PCR)
- UniSTS:213702

RH132739 (e-PCR)
- UniSTS:216022

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA 7-methylguanosine cap binding	IC Inferred by Curator more info	PubMed
enables RNA 7-methylguanosine cap binding	ISO Inferred from Sequence Orthology more info
enables RNA cap binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA cap binding	IEA Inferred from Electronic Annotation 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

Process	Evidence Code	Pubs
involved_in 7-methylguanosine mRNA capping	IEA Inferred from Electronic Annotation more info
involved_in 7-methylguanosine mRNA capping	ISO Inferred from Sequence Orthology more info
involved_in 7-methylguanosine mRNA capping	ISS Inferred from Sequence or Structural Similarity 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
involved_in RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in biological_process	ND No biological Data available more info
involved_in defense response to virus	ISO Inferred from Sequence Orthology more info
involved_in histone mRNA metabolic process	ISO Inferred from Sequence Orthology more info
involved_in mRNA export from nucleus	IBA Inferred from Biological aspect of Ancestor more info
involved_in mRNA export from nucleus	IEA Inferred from Electronic Annotation more info
involved_in mRNA export from nucleus	ISO Inferred from Sequence Orthology more info
involved_in mRNA export from nucleus	ISS Inferred from Sequence or Structural Similarity more info
involved_in mRNA metabolic process	ISO Inferred from Sequence Orthology more info
involved_in mRNA metabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in mRNA transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
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	IEA Inferred from Electronic Annotation 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	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cell growth	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell growth	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of mRNA 3'-end processing	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mRNA 3'-end processing	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
involved_in regulation of mRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of translational initiation	ISO Inferred from Sequence Orthology more info
involved_in regulation of translational initiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulatory ncRNA-mediated gene silencing	IEA Inferred from Electronic Annotation more info
involved_in snRNA export from nucleus	ISO Inferred from Sequence Orthology more info
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 cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	IEA Inferred from Electronic Annotation 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	IDA Inferred from Direct Assay more info	PubMed
part_of nuclear cap binding complex	IEA Inferred from Electronic Annotation more info
part_of nuclear cap binding complex	ISO Inferred from Sequence Orthology more info
part_of nuclear cap binding complex	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
part_of ribonucleoprotein complex	ISO Inferred from Sequence Orthology more info
part_of ribonucleoprotein complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: nuclear cap-binding protein subunit 1

Names: 80 kDa nuclear cap-binding protein; CBP80; NCBP 80 kDa subunit; nuclear cap binding protein subunit 1, 80kDa

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_001014785.1 → NP_001014785.1 nuclear cap-binding protein subunit 1

See identical proteins and their annotated locations for NP_001014785.1

Status: PROVISIONAL

Source sequence(s)

BC092199

UniProtKB/Swiss-Prot

Q56A27

UniProtKB/TrEMBL

A0A8I6GF54, A6IJB1

Related

ENSRNOP00000077595.1, ENSRNOT00000109965.1

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 → 760

MIF4G_like_2; MIF4G like

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086023.1 Reference GRCr8

Range

65211632..65244532

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006238037.4 → XP_006238099.1 nuclear cap-binding protein subunit 1 isoform X1

UniProtKB/TrEMBL

A0A8I6GF54

Conserved Domains (3) summary

smart00543
Location:1 → 133

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

pfam09088
Location:244 → 363

MIF4G_like; MIF4G like

pfam09090
Location:378 → 653

MIF4G_like_2; MIF4G like