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    Prpf18 pre-mRNA processing factor 18 [ Mus musculus (house mouse) ]

    Gene ID: 67229, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Prpf18provided by MGI
    Official Full Name
    pre-mRNA processing factor 18provided by MGI
    Primary source
    MGI:MGI:1914479
    See related
    Ensembl:ENSMUSG00000039449 AllianceGenome:MGI:1914479
    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
    2810441A10Rik
    Summary
    Predicted to be involved in generation of catalytic spliceosome for second transesterification step and negative regulation of protein metabolic process. Predicted to be located in nuclear speck. Predicted to be part of U2-type post-spliceosomal complex; U4/U6 x U5 tri-snRNP complex; and U5 snRNP. Is expressed in several structures, including adipose tissue; alimentary system; central nervous system; genitourinary system; and sensory organ. Orthologous to human PRPF18 (pre-mRNA processing factor 18). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in liver E14 (RPKM 11.8), placenta adult (RPKM 11.0) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Prpf18 in Genome Data Viewer
    Location:
    2 A1; 2 2.79 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (4626869..4656946, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (4622058..4652135, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene FERM domain containing 4A Neighboring gene predicted gene, 39751 Neighboring gene VISTA enhancer mm422 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:4480752-4480861 Neighboring gene STARR-seq mESC enhancer starr_03538 Neighboring gene VISTA enhancer mm423 Neighboring gene STARR-seq mESC enhancer starr_03540 Neighboring gene STARR-seq mESC enhancer starr_03542 Neighboring gene predicted gene 13179 Neighboring gene STARR-seq mESC enhancer starr_03543 Neighboring gene STARR-seq mESC enhancer starr_03544 Neighboring gene ribosomal protein L22 pseudogene Neighboring gene BEN domain containing 7

    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. PEG3 binds to H19-ICR as a transcriptional repressor. Ye A, et al. Epigenetics, 2016 Dec. PMID 27824289, Free PMC Article
    2. Overlapping Activities of Two Neuronal Splicing Factors Switch the GABA Effect from Excitatory to Inhibitory by Regulating REST. Nakano Y, et al. Cell Rep, 2019 Apr 16. PMID 30995482, Free PMC Article
    3. A genome-wide in situ hybridization map of RNA-binding proteins reveals anatomically restricted expression in the developing mouse brain. McKee AE, et al. BMC Dev Biol, 2005 Jul 20. PMID 16033648, Free PMC Article
    4. BioID screening of biotinylation sites using the avidin-like protein Tamavidin 2-REV identifies global interactors of stimulator of interferon genes (STING). Motani K, et al. J Biol Chem, 2020 Aug 7. PMID 32554809, Free PMC Article
    5. The International Mouse Phenotyping Consortium Web Portal, a unified point of access for knockout mice and related phenotyping data. Koscielny G, et al. Nucleic Acids Res, 2014 Jan. PMID 24194600, Free PMC Article

    See all (19) 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) 
    • Targeted (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

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in generation of catalytic spliceosome for second transesterification step IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of protein metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of U2-type post-spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U4/U6 x U5 tri-snRNP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U5 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of spliceosomal complex IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    pre-mRNA-splicing factor 18
    Names
    HPRP18 homolog
    PRP18 homolog
    PRP18 pre-mRNA processing factor 18 homolog

    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_001356451.1 → NP_001343380.1  pre-mRNA-splicing factor 18 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AL807832, AL928550
      Conserved Domains (2) summary
      smart00500
      Location:88 → 131
      SFM; Splicing Factor Motif, present in Prp18 and Pr04
      pfam02840
      Location:204 → 340
      Prp18; Prp18 domain

    2. NM_026045.4 → NP_080321.2  pre-mRNA-splicing factor 18 isoform 2

      See identical proteins and their annotated locations for NP_080321.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      AI789029, BC058631, BQ176788
      Consensus CDS
      CCDS15657.1
      UniProtKB/Swiss-Prot
      Q3UX46, Q8BM39, Q8BZ54
      Related
      ENSMUSP00000041428.8, ENSMUST00000035721.14
      Conserved Domains (2) summary
      smart00500
      Location:79 → 122
      SFM; Splicing Factor Motif, present in Prp18 and Pr04
      pfam02840
      Location:191 → 328
      Prp18; Prp18 domain

    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_000068.8 Reference GRCm39 C57BL/6J

      Range
      4626869..4656946 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BM39.1 GenPept UniProtKB/Swiss-Prot:Q8BM39

    Gene LinkOut

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

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