Nup54 nucleoporin 54 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nup54provided by RGD
Official Full Name: nucleoporin 54provided by RGD
Primary source: RGD:619926
See related: EnsemblRapid:ENSRNOG00000002247 AllianceGenome:RGD:619926
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables identical protein binding activity. A structural constituent of nuclear pore. Involved in nucleocytoplasmic transport; protein targeting; and regulation of protein import into nucleus. Located in nuclear envelope. Part of nuclear pore. Human ortholog(s) of this gene implicated in dystonia 37, early-onset with striatal lesions. Orthologous to human NUP54 (nucleoporin 54). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 97.8), Spleen (RPKM 88.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 14p22

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	14	NC_086032.1 (15901936..15920335)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	14	NC_051349.1 (15617630..15636029)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	14	NC_005113.4 (17123434..17141832)

Chromosome 14 - NC_086032.1 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?

we carried out solution analysis utilizing the entire ordered regions of Nup62, Nup54, and Nup58, and demonstrate that they form a dynamic "triple complex"
Title: Ordered Regions of Channel Nucleoporins Nup62, Nup54, and Nup58 Form Dynamic Complexes in Solution.
A 1:1:1 stoichiometry of the Nup62 complex, where Nup54 is central with direct binding to Nup62 and Nup58.
Title: The stoichiometry of the nucleoporin 62 subcomplex of the nuclear pore in solution.
Study reports the crystal structures of the Nup54-Nup58 and Nup62-Nup54 interacting domains and reconstruct the molecular architecture of the NPC transport channel.
Title: Molecular architecture of the transport channel of the nuclear pore complex.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AI060908 (e-PCR)
- UniSTS:186165

D14Ulb1 (e-PCR)
- UniSTS:518709

RH142315 (e-PCR)
- UniSTS:231562

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed
enables protein-containing complex binding	IPI Inferred from Physical Interaction more info	PubMed
enables structural constituent of nuclear pore	IBA Inferred from Biological aspect of Ancestor more info
enables structural constituent of nuclear pore	IDA Inferred from Direct Assay more info	PubMed
enables structural constituent of nuclear pore	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in NLS-bearing protein import into nucleus	IBA Inferred from Biological aspect of Ancestor more info
involved_in mRNA transport	IEA Inferred from Electronic Annotation more info
involved_in nuclear pore organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in nucleocytoplasmic transport	IDA Inferred from Direct Assay more info	PubMed
involved_in protein localization to nuclear inner membrane	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein targeting	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of protein import into nucleus	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in nuclear envelope	IDA Inferred from Direct Assay more info	PubMed
located_in nuclear envelope	ISO Inferred from Sequence Orthology more info
located_in nuclear membrane	IEA Inferred from Electronic Annotation more info
part_of nuclear pore	IDA Inferred from Direct Assay more info	PubMed
part_of nuclear pore	IEA Inferred from Electronic Annotation more info
part_of nuclear pore central transport channel	IBA Inferred from Biological aspect of Ancestor more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: nuclear pore complex protein Nup54

Names: 54 kDa nucleoporin; nucleoporin Nup54; nucleoporin p54

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_001433875.1 → NP_001420804.1 nuclear pore complex protein Nup54 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000014

UniProtKB/TrEMBL

A0A8I5ZV73
NM_001433877.1 → NP_001420806.1 nuclear pore complex protein Nup54 isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000014
NM_017361.2 → NP_059057.1 nuclear pore complex protein Nup54 isoform 2

See identical proteins and their annotated locations for NP_059057.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000014

UniProtKB/Swiss-Prot

P70582

UniProtKB/TrEMBL

A0A8I5ZV73, A6KK71

Related

ENSRNOP00000003070.3, ENSRNOT00000003070.7

Conserved Domains (1) summary

pfam13874
Location:305 → 440

Nup54; Nucleoporin complex subunit 54