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Nup42 nucleoporin 42 [ Mus musculus (house mouse) ]

Gene ID: 231042, updated on 28-Oct-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, Oct 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 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. 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
  2. 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
  3. Molecular cloning and functional characterization of mouse Nxf family gene products. Sasaki M, et al. Genomics, 2005 May. PMID 15820316
  4. Tulp1 is involved in specific photoreceptor protein transport pathways. Hagstrom SA, et al. Adv Exp Med Biol, 2012. PMID 22183407
  5. Peering through the pore: nuclear pore complex structure, assembly, and function. Suntharalingam M, et al. Dev Cell, 2003 Jun. PMID 12791264

See all (25) 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

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