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    Nup42 nucleoporin 42 [ Mus musculus (house mouse) ]

    Gene ID: 231042, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Nup42provided by MGI
    Official Full Name
    nucleoporin 42provided by MGI
    Primary source
    MGI:MGI:2387631
    See related
    Ensembl:ENSMUSG00000048439 AllianceGenome:MGI:2387631
    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
    CG1; Nlp1; NLP-1; Nupl2
    Summary
    Predicted to enable nuclear export signal receptor activity. Predicted to be involved in mRNA transport and protein transport. Located in photoreceptor outer segment. Is expressed in early conceptus; inner cell mass; and oocyte. Orthologous to human NUP42 (nucleoporin 42). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in testis adult (RPKM 14.1), CNS E11.5 (RPKM 2.4) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Nup42 in Genome Data Viewer
    Location:
    5 A3; 5 10.72 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (24369961..24389011)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (24164963..24184013)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_12627 Neighboring gene predicted gene, 18038 Neighboring gene STARR-positive B cell enhancer ABC_E6313 Neighboring gene STARR-seq mESC enhancer starr_12628 Neighboring gene kelch-like 7 Neighboring gene gamma-aminobutyric acid (GABA) A receptor-associated protein-like 2 pseudogene Neighboring gene STARR-seq mESC enhancer starr_12630 Neighboring gene STARR-seq mESC enhancer starr_12632 Neighboring gene STARR-seq mESC enhancer starr_12633 Neighboring gene heat shock protein 8 pseudogene Neighboring gene predicted gene 43828

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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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    Related articles in PubMed

    1. Dynamic landscape of alternative polyadenylation during retinal development. Hu W, et al. Cell Mol Life Sci, 2017 May. PMID 27990575, Free PMC Article
    2. The RNA export factor Gle1p is located on the cytoplasmic fibrils of the NPC and physically interacts with the FG-nucleoporin Rip1p, the DEAD-box protein Rat8p/Dbp5p and a new protein Ymr 255p. Strahm Y, et al. EMBO J, 1999 Oct 15. PMID 10610322, Free PMC Article
    3. Efficient conditional and promoter-specific in vivo expression of cDNAs of choice by taking advantage of recombinase-mediated cassette exchange using FlEx gene traps. Schebelle L, et al. Nucleic Acids Res, 2010 May. PMID 20139417, Free PMC Article
    4. Molecular cloning and functional characterization of mouse Nxf family gene products. Sasaki M, et al. Genomics, 2005 May. PMID 15820316
    5. Tulp1 is involved in specific photoreceptor protein transport pathways. Hagstrom SA, et al. Adv Exp Med Biol, 2012. PMID 22183407

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nuclear export signal receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in mRNA transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in nucleocytoplasmic transport NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    colocalizes_with nuclear envelope IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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 NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in photoreceptor outer segment IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    nucleoporin NUP42
    Names
    nucleoporin like 2
    nucleoporin-like protein 1
    nucleoporin-like protein 2

    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)

    1. NM_001346582.1 → NP_001333511.1  nucleoporin NUP42 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream start codon, compared to variant 1. It encodes isoform 2, which is shorter at the N-terminus, compared to isoform 1.
      Source sequence(s)
      AK077066, AK078478, BQ442924
      UniProtKB/Swiss-Prot
      Q8CIC2
      Conserved Domains (1) summary
      pfam08580
      Location:25 → 197
      KAR9; Yeast cortical protein KAR9

    2. NM_153092.4 → NP_694732.3  nucleoporin NUP42 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AA867018, AK078478
      Consensus CDS
      CCDS19115.1
      UniProtKB/Swiss-Prot
      Q8BJX3, Q8BVP7, Q8CIC2, Q924S0
      UniProtKB/TrEMBL
      E9QL43
      Related
      ENSMUSP00000062766.7, ENSMUST00000049887.13
      Conserved Domains (2) summary
      pfam08580
      Location:221 → 393
      KAR9; Yeast cortical protein KAR9
      pfam18345
      Location:4 → 22
      zf_CCCH_4; Zinc finger domain

    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

    1. NC_000071.7 Reference GRCm39 C57BL/6J

      Range
      24369961..24389011
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030254373.2 → XP_030110233.1  nucleoporin NUP42 isoform X1

      Conserved Domains (1) summary
      pfam08580
      Location:25 → 197
      KAR9; Yeast cortical protein KAR9
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8CIC2.1 GenPept UniProtKB/Swiss-Prot:Q8CIC2

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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