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

    Gene ID: 70052, updated on 2-Nov-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 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. Is expressed in several structures, including hemolymphoid system; liver; lung; muscle tissue; and retina. Human ortholog(s) of this gene implicated in retinitis pigmentosa 70. Orthologous to human PRPF4 (pre-mRNA splicing tri-snRNP complex factor PRPF4). [provided by Alliance of Genome Resources, Nov 2024]
    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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    See Prpf4 in Genome Data Viewer
    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 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 (2) 

    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
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in Cajal body ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U2-type precatalytic spliceosome IEA
    Inferred from Electronic Annotation
    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 snRNP ISS
    Inferred from Sequence or Structural Similarity
    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 nuclear speck ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of spliceosomal snRNP complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of spliceosomal snRNP complex ISS
    Inferred from Sequence or Structural Similarity
    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

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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