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    Nup54 nucleoporin 54 [ Mus musculus (house mouse) ]

    Gene ID: 269113, updated on 23-May-2018

    Summary

    Official Symbol
    Nup54provided by MGI
    Official Full Name
    nucleoporin 54provided by MGI
    Primary source
    MGI:MGI:1920460
    See related
    Ensembl:ENSMUSG00000034826 Vega:OTTMUSG00000028742
    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, OTTMUSP00000036426, ENSMUST00000038514.14, OTTMUST00000071193
      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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