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    Prpf18 pre-mRNA processing factor 18 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 171552, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Prpf18provided by RGD
    Official Full Name
    pre-mRNA processing factor 18provided by RGD
    Primary source
    RGD:708550
    See related
    EnsemblRapid:ENSRNOG00000018396 AllianceGenome:RGD:708550
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    KCRF; Pprf18
    Summary
    Involved in 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. Orthologous to human PRPF18 (pre-mRNA processing factor 18). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 163.7), Spleen (RPKM 138.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Prpf18 in Genome Data Viewer
    Location:
    17q12.3
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (78539004..78570483)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (73630560..73661210)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (77601914..77632507)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene BEN domain containing 7 Neighboring gene cyclin-dependent kinases regulatory subunit 2 pseudogene Neighboring gene F-box and leucine-rich repeat protein 14, pseudogene 1 Neighboring gene uncharacterized LOC120097893 Neighboring gene FERM domain containing 4A Neighboring gene uncharacterized LOC134482746

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Expression cloning of KCRF, a potassium channel regulatory factor. Keren-Raifman T, et al. Biochem Biophys Res Commun, 2000 Aug 11. PMID 10924366
    2. A day in the life of the spliceosome. Matera AG, et al. Nat Rev Mol Cell Biol, 2014 Feb. PMID 24452469, Free PMC Article
    3. Gene expression profiling of purified rat retinal ganglion cells. Farkas RH, et al. Invest Ophthalmol Vis Sci, 2004 Aug. PMID 15277470
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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
    PRP18 homolog
    PRP18 pre-mRNA processing factor 18 homolog
    potassium channel regulatory factor

    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_138523.3 → NP_612532.1  pre-mRNA-splicing factor 18

      See identical proteins and their annotated locations for NP_612532.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000017
      UniProtKB/Swiss-Prot
      Q9JKB8
      UniProtKB/TrEMBL
      A0A8I5ZZP7, A6JM01
      Related
      ENSRNOP00000096726.2, ENSRNOT00000110607.2
      Conserved Domains (2) summary
      smart00500
      Location:79 → 122
      SFM; Splicing Factor Motif, present in Prp18 and Pr04
      pfam02840
      Location:191 → 327
      Prp18; Prp18 domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086035.1 Reference GRCr8

      Range
      78539004..78570483
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039095330.2 → XP_038951258.1  pre-mRNA-splicing factor 18 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZZP7, A0A8I6ATV0
      Related
      ENSRNOP00000024872.6, ENSRNOT00000024872.7
      Conserved Domains (2) summary
      smart00500
      Location:88 → 131
      SFM; Splicing Factor Motif, present in Prp18 and Pr04
      pfam02840
      Location:200 → 336
      Prp18; Prp18 domain

    2. XM_039095331.2 → XP_038951259.1  pre-mRNA-splicing factor 18 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZZP7, A0A8I6ATV0
      Conserved Domains (2) summary
      smart00500
      Location:88 → 131
      SFM; Splicing Factor Motif, present in Prp18 and Pr04
      pfam02840
      Location:200 → 336
      Prp18; Prp18 domain

    3. XM_063276042.1 → XP_063132112.1  pre-mRNA-splicing factor 18 isoform X4

      UniProtKB/Swiss-Prot
      Q9JKB8
      UniProtKB/TrEMBL
      A0A8I5ZZP7, A6JM01
      Related
      ENSRNOP00000083623.2, ENSRNOT00000111512.2

    4. XM_039095328.2 → XP_038951256.1  pre-mRNA-splicing factor 18 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZZP7
      Conserved Domains (2) summary
      smart00500
      Location:88 → 131
      SFM; Splicing Factor Motif, present in Prp18 and Pr04
      pfam02840
      Location:200 → 325
      Prp18; Prp18 domain

    5. XM_039095329.2 → XP_038951257.1  pre-mRNA-splicing factor 18 isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZZP7
      Conserved Domains (2) summary
      smart00500
      Location:79 → 122
      SFM; Splicing Factor Motif, present in Prp18 and Pr04
      pfam02840
      Location:191 → 316
      Prp18; Prp18 domain

    6. XM_039095332.2 → XP_038951260.1  pre-mRNA-splicing factor 18 isoform X5

      UniProtKB/TrEMBL
      A0A8I6AG45
      Related
      ENSRNOP00000074228.1, ENSRNOT00000091554.3
      Conserved Domains (2) summary
      smart00500
      Location:88 → 131
      SFM; Splicing Factor Motif, present in Prp18 and Pr04
      pfam02840
      Location:200 → 325
      Prp18; Prp18 domain

    7. XM_039095334.2 → XP_038951262.1  pre-mRNA-splicing factor 18 isoform X7

      Conserved Domains (1) summary
      smart00500
      Location:88 → 130
      SFM; Splicing Factor Motif, present in Prp18 and Pr04

    8. XM_039095333.2 → XP_038951261.1  pre-mRNA-splicing factor 18 isoform X6

      Conserved Domains (2) summary
      smart00500
      Location:3 → 46
      SFM; Splicing Factor Motif, present in Prp18 and Pr04
      pfam02840
      Location:115 → 240
      Prp18; Prp18 domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9JKB8.1 GenPept UniProtKB/Swiss-Prot:Q9JKB8

    Gene LinkOut

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