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Nup88 nucleoporin 88 [ Mus musculus (house mouse) ]

Gene ID: 19069, updated on 18-Apr-2024

Summary

Official Symbol
Nup88provided by MGI
Official Full Name
nucleoporin 88provided by MGI
Primary source
MGI:MGI:104900
See related
Ensembl:ENSMUSG00000040667 AllianceGenome:MGI:104900
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
Nup84; Prei2
Summary
Predicted to be a structural constituent of nuclear pore. Predicted to be involved in mitotic cell cycle and nucleocytoplasmic transport. Predicted to act upstream of or within mRNA transport and protein transport. Predicted to be located in nucleoplasm. Predicted to be part of nuclear pore. Is expressed in central nervous system; early conceptus; gonad; and sensory organ. Human ortholog(s) of this gene implicated in fetal akinesia deformation sequence syndrome 4. Orthologous to human NUP88 (nucleoporin 88). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 33.6), CNS E14 (RPKM 26.4) and 28 other tissues See more
Orthologs
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Genomic context

Location:
11 B4; 11 43.21 cM
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (70833884..70860799, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (70943058..70969973, complement)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene rabaptin, RAB GTPase binding effector protein 1 Neighboring gene ribosomal protein L23A, pseudogene 2 Neighboring gene predicted gene 12322 Neighboring gene STARR-seq mESC enhancer starr_29882 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:70783671-70783780 Neighboring gene RPA interacting protein Neighboring gene complement component 1, q subcomponent binding protein Neighboring gene DEAH-box helicase 33 Neighboring gene predicted gene, 22297

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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables structural constituent of nuclear pore IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in mRNA export from nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within mRNA transport IEA
Inferred from Electronic Annotation
more info
 
involved_in nucleocytoplasmic transport NAS
Non-traceable Author Statement
more info
PubMed 
involved_in protein import into nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within protein transport IEA
Inferred from Electronic Annotation
more info
 
involved_in ribosomal large subunit export from nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in ribosomal small subunit export from nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
located_in nuclear envelope ISO
Inferred from Sequence Orthology
more info
 
part_of nuclear pore IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of nuclear pore ISO
Inferred from Sequence Orthology
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 nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
nuclear pore complex protein Nup88
Names
88 kDa nucleoporin
preimplantation 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_001083331.2NP_001076800.1  nuclear pore complex protein Nup88 isoform 2

    See identical proteins and their annotated locations for NP_001076800.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) encodes the longest isoform (2).
    Source sequence(s)
    AK028563, AK050893, AK160619
    Consensus CDS
    CCDS36206.1
    UniProtKB/Swiss-Prot
    Q80Z13, Q8CEC0, Q8K090
    UniProtKB/TrEMBL
    Q3TM09
    Related
    ENSMUSP00000048101.5, ENSMUST00000035283.11
    Conserved Domains (2) summary
    pfam10168
    Location:14751
    Nup88; Nuclear pore component
    pfam13863
    Location:570678
    DUF4200; Domain of unknown function (DUF4200)
  2. NM_001276406.1NP_001263335.1  nuclear pore complex protein Nup88 isoform 3

    See identical proteins and their annotated locations for NP_001263335.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in the coding region, compared to variant 2. The encoded isoform (3) is shorter, compared to isoform 2.
    Source sequence(s)
    AK028563, AK050893, AK160619
    Consensus CDS
    CCDS70233.1
    UniProtKB/TrEMBL
    Q3TM09
    Related
    ENSMUSP00000104171.2, ENSMUST00000108531.8
    Conserved Domains (2) summary
    pfam10168
    Location:14745
    Nup88; Nuclear pore component
    cl12013
    Location:589688
    BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature
  3. NM_172394.3NP_765982.2  nuclear pore complex protein Nup88 isoform 1

    See identical proteins and their annotated locations for NP_765982.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) uses two alternate splice sites in the coding region, compared to variant 2. The encoded isoform (1) is shorter, compared to isoform 2.
    Source sequence(s)
    AK050893, AK160619
    Consensus CDS
    CCDS36207.1
    UniProtKB/TrEMBL
    Q3TM09, Q5QNU0
    Related
    ENSMUSP00000104170.2, ENSMUST00000108530.2
    Conserved Domains (2) summary
    pfam10168
    Location:14740
    Nup88; Nuclear pore component
    cl12013
    Location:584683
    BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature

RNA

  1. NR_075087.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate 5' exon structure, alternate splice sites in three internal exons, and lacks two internal exons, compared to variant 2. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 2, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK050893, AK139738, AK160619
    Related
    ENSMUST00000178253.8

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_000077.7 Reference GRCm39 C57BL/6J

    Range
    70833884..70860799 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)