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

Gene ID: 171552, updated on 13-Apr-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
Ensembl: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 cellular protein metabolic process. Located in membrane. Orthologous to human PRPF18 (pre-mRNA processing factor 18). [provided by Alliance of Genome Resources, Apr 2022]
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 generation of catalytic spliceosome for second transesterification step IBA
Inferred from Biological aspect of Ancestor
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
  

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
    ENSRNOP00000024872.5, ENSRNOT00000024872.6
    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
    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
    Related
    ENSRNOP00000096726.1
    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
    A6JM01

  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
    ENSRNOP00000093610.1
    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

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