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Snrnp40 small nuclear ribonucleoprotein 40 (U5) [ Mus musculus (house mouse) ]

Gene ID: 66585, updated on 8-Feb-2024

Summary

Official Symbol
Snrnp40provided by MGI
Official Full Name
small nuclear ribonucleoprotein 40 (U5)provided by MGI
Primary source
MGI:MGI:1913835
See related
Ensembl:ENSMUSG00000074088 AllianceGenome:MGI:1913835
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
Wdr57; Prp8bp; 0610009C03Rik
Summary
Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in cytosol and nuclear speck. Predicted to be part of U2-type catalytic step 2 spliceosome. Is expressed in liver; lung; metanephros; renal cortex; and submandibular gland primordium. Orthologous to human SNRNP40 (small nuclear ribonucleoprotein U5 subunit 40). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 42.3), limb E14.5 (RPKM 31.2) and 28 other tissues See more
Orthologs
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Genomic context

See Snrnp40 in Genome Data Viewer
Location:
4 D2.2; 4 63.43 cM
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (130253925..130283826)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (130360132..130390033)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene fatty acid binding protein 3, muscle and heart Neighboring gene zinc finger, CCHC domain containing 17 Neighboring gene predicted gene, 35074 Neighboring gene STARR-positive B cell enhancer ABC_E425 Neighboring gene Na+/K+ transporting ATPase interacting 1 Neighboring gene STARR-seq mESC enhancer starr_11526 Neighboring gene predicted gene, 53228

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

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Gene Ontology Provided by MGI

Process Evidence Code Pubs
acts_upstream_of_or_within RNA splicing IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of U2-type catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
 
part_of U4/U6 x U5 tri-snRNP complex ISO
Inferred from Sequence Orthology
more info
 
part_of catalytic step 2 spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
part_of spliceosomal complex IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
U5 small nuclear ribonucleoprotein 40 kDa protein
Names
U5 snRNP 40 kDa protein
U5 snRNP-specific protein (Prp8-binding)
WD repeat domain 57 (U5 snRNP specific)
WD repeat-containing protein 57
small nuclear ribonucleoprotein 40kDa (U5)

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_025645.2NP_079921.2  U5 small nuclear ribonucleoprotein 40 kDa protein

    See identical proteins and their annotated locations for NP_079921.2

    Status: VALIDATED

    Source sequence(s)
    BC058365, BY002298, BY783206
    Consensus CDS
    CCDS38892.1
    UniProtKB/Swiss-Prot
    Q3TEJ3, Q6PE01, Q9DCX3
    Related
    ENSMUSP00000101616.4, ENSMUST00000105994.4
    Conserved Domains (2) summary
    cd00200
    Location:63352
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:71108
    7WD40; WD40 repeat [structural motif]

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_000070.7 Reference GRCm39 C57BL/6J

    Range
    130253925..130283826
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)