Nup88 nucleoporin 88 [Mus musculus (house mouse)] - Gene

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: human all
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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_000077.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Nup88 is up-regulated in response to hypertonic stress and acts to retain TonEBP in the nucleus, activating transcription of critical osmoprotective genes.
Title: Nucleoporin 88 (Nup88) is regulated by hypertonic stress in kidney cells to retain the transcription factor tonicity enhancer-binding protein (TonEBP) in the nucleus.
Nup88 regulates the activity of NF-kappaB at the level of nucleocytoplasmic transport.
Title: Tumor marker nucleoporin 88 kDa regulates nucleocytoplasmic transport of NF-kappaB.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1) 1 citation
Targeted (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D11Die13 (e-PCR), detects polymorphism
- UniSTS:226093

D11Die32 (e-PCR), detects polymorphism
- UniSTS:226107

D11Die33 (e-PCR), detects polymorphism
- UniSTS:226108

D11Mit320 (e-PCR), detects polymorphism
- UniSTS:126533

Nup88 (e-PCR), detects polymorphism
- UniSTS:532891

Nup88 (e-PCR), detects polymorphism
- UniSTS:479182

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

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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)

NM_001083331.2 → NP_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:14 → 751

Nup88; Nuclear pore component

pfam13863
Location:570 → 678

DUF4200; Domain of unknown function (DUF4200)
NM_001276406.1 → NP_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:14 → 745

Nup88; Nuclear pore component

cl12013
Location:589 → 688

BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature
NM_172394.3 → NP_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:14 → 740

Nup88; Nuclear pore component

cl12013
Location:584 → 683

BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature

RNA

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