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Prpf4 pre-mRNA processing factor 4 [ Mus musculus (house mouse) ]

Gene ID: 70052, updated on 5-Mar-2024

Summary

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Official Symbol
Prpf4provided by MGI
Official Full Name
pre-mRNA processing factor 4provided by MGI
Primary source
MGI:MGI:1917302
See related
Ensembl:ENSMUSG00000066148 AllianceGenome:MGI:1917302
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
bN189G18.1; 1600015H11Rik
Summary
Predicted to enable U4 snRNA binding activity and U6 snRNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in Cajal body and nuclear speck. Predicted to be part of U2-type precatalytic spliceosome; U4/U6 snRNP; and U4/U6 x U5 tri-snRNP complex. Human ortholog(s) of this gene implicated in retinitis pigmentosa 70. Orthologous to human PRPF4 (pre-mRNA processing factor 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 7.2), limb E14.5 (RPKM 6.9) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
4 B3; 4 33.13 cM
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (62327002..62345227)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (62408762..62426990)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene FK506 binding protein 15 Neighboring gene STARR-positive B cell enhancer ABC_E1277 Neighboring gene STARR-seq mESC enhancer starr_10423 Neighboring gene solute carrier family 31, member 1 Neighboring gene STARR-positive B cell enhancer mm9_chr4:62069546-62069847 Neighboring gene cell division cycle 26 Neighboring gene ring finger protein 183 Neighboring gene predicted gene, 30589 Neighboring gene WD repeat domain 31

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. Temporal and tissue specific regulation of RP-associated splicing factor genes PRPF3, PRPF31 and PRPC8--implications in the pathogenesis of RP. Cao H, et al. PLoS One, 2011 Jan 19. PMID 21283520, Free PMC Article
  2. Affinity purification strategies for proteomic analysis of transcription factor complexes. Giambruno R, et al. J Proteome Res, 2013 Sep 6. PMID 23937658, Free PMC Article
  3. Pharmacological targeting of the Wdr5-MLL interaction in C/EBPα N-terminal leukemia. Grebien F, et al. Nat Chem Biol, 2015 Aug. PMID 26167872, Free PMC Article
  4. Epilepsy- and intellectual disability-associated CYFIP2 interacts with both actin regulators and RNA-binding proteins in the neonatal mouse forebrain. Lee Y, et al. Biochem Biophys Res Commun, 2020 Aug 13. PMID 32560809
  5. High-throughput mapping of a dynamic signaling network in mammalian cells. Barrios-Rodiles M, et al. Science, 2005 Mar 11. PMID 15761153

See all (23) 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

Clone Names

  • MGC117717

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables U4 snRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables U6 snRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
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
  
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
involved_in mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in Cajal body ISO
Inferred from Sequence Orthology
more info
  
part_of U2-type precatalytic spliceosome ISO
Inferred from Sequence Orthology
more info
  
part_of U4/U6 snRNP ISO
Inferred from Sequence Orthology
more info
  
part_of U4/U6 x U5 tri-snRNP complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of U4/U6 x U5 tri-snRNP complex ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of spliceosomal complex IEA
Inferred from Electronic Annotation
more info
  
part_of spliceosomal snRNP complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
U4/U6 small nuclear ribonucleoprotein Prp4
Names
U4/U6 snRNP 60 kDa protein
WD splicing factor Prp4

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_027297.3 → NP_081573.1  U4/U6 small nuclear ribonucleoprotein Prp4

    See identical proteins and their annotated locations for NP_081573.1

    Status: VALIDATED

    Source sequence(s)
    AK167216, AL732548, AL732594
    Consensus CDS
    CCDS18239.1
    UniProtKB/Swiss-Prot
    Q9DAW6
    UniProtKB/TrEMBL
    Q059T9, Q5NBV9, Q8BTJ0
    Related
    ENSMUSP00000081572.4, ENSMUST00000084524.4
    Conserved Domains (3) summary
    smart00500
    Location:102 → 140
    SFM; Splicing Factor Motif, present in Prp18 and Pr04
    cd00200
    Location:232 → 518
    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:233 → 270
    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
    62327002..62345227
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030253770.2 → XP_030109630.1  U4/U6 small nuclear ribonucleoprotein Prp4 isoform X1

    Conserved Domains (2) summary
    cd00200
    Location:8 → 276
    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:42 → 78
    7WD40; WD40 repeat [structural motif]

  2. XM_006538249.4 → XP_006538312.1  U4/U6 small nuclear ribonucleoprotein Prp4 isoform X1

    Conserved Domains (2) summary
    cd00200
    Location:8 → 276
    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:42 → 78
    7WD40; WD40 repeat [structural motif]

RNA

  1. XR_390341.3 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9DAW6.1 GenPept UniProtKB/Swiss-Prot:Q9DAW6

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