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Nup54 nucleoporin 54 [ Mus musculus (house mouse) ]

Gene ID: 269113, updated on 31-Jan-2019

Summary

Official Symbol
Nup54provided by MGI
Official Full Name
nucleoporin 54provided by MGI
Primary source
MGI:MGI:1920460
See related
Ensembl:ENSMUSG00000034826
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
54kDa; 3110079L04Rik
Expression
Ubiquitous expression in CNS E11.5 (RPKM 10.3), CNS E14 (RPKM 9.8) and 28 other tissues See more
Orthologs

Genomic context

See Nup54 in Genome Data Viewer
Location:
5; 5 E2
Exon count:
15
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 5 NC_000071.6 (92415540..92435269, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 5 NC_000071.5 (92844566..92864225, complement)

Chromosome 5 - NC_000071.6Genomic Context describing neighboring genes Neighboring gene ADP-ribosyltransferase 3 Neighboring gene chemokine (C-X-C motif) ligand 11 Neighboring gene CWF19-like 1, cell cycle control pseudogene Neighboring gene predicted gene, 42114 Neighboring gene scavenger receptor class B, member 2 Neighboring gene microRNA 6415 Neighboring gene family with sequence similarity 47, member E

Genomic regions, transcripts, and products

Expression

  • 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

Pathways from BioSystems

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
structural constituent of nuclear pore IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
structural constituent of nuclear pore ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
NLS-bearing protein import into nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA transport IEA
Inferred from Electronic Annotation
more info
 
nuclear pore organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleocytoplasmic transport ISO
Inferred from Sequence Orthology
more info
 
protein heterooligomerization ISO
Inferred from Sequence Orthology
more info
 
protein heterotetramerization ISO
Inferred from Sequence Orthology
more info
 
protein heterotrimerization ISO
Inferred from Sequence Orthology
more info
 
protein homooligomerization ISO
Inferred from Sequence Orthology
more info
 
protein localization to nuclear inner membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein targeting ISO
Inferred from Sequence Orthology
more info
 
protein transport IEA
Inferred from Electronic Annotation
more info
 
regulation of protein import into nucleus ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
membrane IEA
Inferred from Electronic Annotation
more info
 
nuclear envelope ISO
Inferred from Sequence Orthology
more info
 
nuclear pore ISO
Inferred from Sequence Orthology
more info
 
nuclear pore central transport channel IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IEA
Inferred from Electronic Annotation
more info
 
protein-containing complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
nuclear pore complex protein Nup54
Names
54 kDa nucleoporin
nucleoporin 54kDa
nucleoporin Nup54

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_001359995.1NP_001346924.1  nuclear pore complex protein Nup54 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC122365
    Conserved Domains (1) summary
    pfam13874
    Location:359494
    Nup54; Nucleoporin complex subunit 54
  2. NM_183392.2NP_899248.1  nuclear pore complex protein Nup54 isoform 2

    See identical proteins and their annotated locations for NP_899248.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' end compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AK133841, BQ032638, CJ049542
    Consensus CDS
    CCDS19430.1
    UniProtKB/Swiss-Prot
    Q8BTS4
    Related
    ENSMUSP00000046540.8, ENSMUST00000038514.14
    Conserved Domains (1) summary
    pfam13874
    Location:305440
    Nup54; Nucleoporin complex subunit 54

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000071.6 Reference GRCm38.p4 C57BL/6J

    Range
    92415540..92435269 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006534956.3XP_006535019.1  nuclear pore complex protein Nup54 isoform X1

    Conserved Domains (1) summary
    pfam13874
    Location:359494
    Nup54; Nucleoporin complex subunit 54
  2. XM_006534959.3XP_006535022.1  nuclear pore complex protein Nup54 isoform X3

    Conserved Domains (1) summary
    pfam13874
    Location:108243
    Nup54; Nucleoporin complex subunit 54
  3. XM_017320895.1XP_017176384.1  nuclear pore complex protein Nup54 isoform X3

    Conserved Domains (1) summary
    pfam13874
    Location:108243
    Nup54; Nucleoporin complex subunit 54
  4. XM_006534958.3XP_006535021.1  nuclear pore complex protein Nup54 isoform X2

    Conserved Domains (1) summary
    pfam13874
    Location:122257
    Nup54; Nucleoporin complex subunit 54

RNA

  1. XR_001784701.1 RNA Sequence

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