U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Prpf3 pre-mRNA processing factor 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361995, updated on 2-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Prpf3provided by RGD
    Official Full Name
    pre-mRNA processing factor 3provided by RGD
    Primary source
    RGD:1310555
    See related
    EnsemblRapid:ENSRNOG00000025629 AllianceGenome:RGD:1310555
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable identical protein binding activity. Predicted to be involved in spliceosomal tri-snRNP complex assembly. Part of protein-containing complex. Human ortholog(s) of this gene implicated in retinitis pigmentosa and retinitis pigmentosa 18. Orthologous to human PRPF3 (pre-mRNA processing factor 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 118.7), Lung (RPKM 84.4) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Prpf3 in Genome Data Viewer
    Location:
    2q34
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (186067980..186092427, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (183379041..183403526, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (197947010..197971464, complement)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene threonyl-tRNA synthetase 2, mitochondrial Neighboring gene regulation of nuclear pre-mRNA domain containing 2 Neighboring gene transfer RNA proline (anticodon AGG) 87 Neighboring gene mitochondrial ribosomal protein S21 Neighboring gene circadian associated repressor of transcription

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Mutations in HPRP3, a third member of pre-mRNA splicing factor genes, implicated in autosomal dominant retinitis pigmentosa. Chakarova CF, et al. Hum Mol Genet, 2002 Jan 1. PMID 11773002
    2. A brain-derived MeCP2 complex supports a role for MeCP2 in RNA processing. Long SW, et al. Biosci Rep, 2011 Oct. PMID 21070191, Free PMC Article
    3. RNAi knockdown of hPrp31 leads to an accumulation of U4/U6 di-snRNPs in Cajal bodies. Schaffert N, et al. EMBO J, 2004 Aug 4. PMID 15257298, Free PMC Article
    4. The Prp19 complex and the Usp4Sart3 deubiquitinating enzyme control reversible ubiquitination at the spliceosome. Song EJ, et al. Genes Dev, 2010 Jul 1. PMID 20595234, Free PMC Article
    5. The spliceosome: design principles of a dynamic RNP machine. Wahl MC, et al. Cell, 2009 Feb 20. PMID 19239890

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

    Go to the top of the page

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spliceosomal tri-snRNP complex assembly 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 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 cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of protein-containing complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    U4/U6 small nuclear ribonucleoprotein Prp3
    Names
    PRP3 pre-mRNA processing factor 3 homolog

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001108559.1 → NP_001102029.1  U4/U6 small nuclear ribonucleoprotein Prp3

      See identical proteins and their annotated locations for NP_001102029.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474015
      UniProtKB/TrEMBL
      A0A0G2JTI7, A6K320, D3ZI99
      Related
      ENSRNOP00000060155.1, ENSRNOT00000063866.4
      Conserved Domains (3) summary
      smart00311
      Location:3 → 73
      PWI; PWI, domain in splicing factors
      pfam06544
      Location:546 → 605
      DUF1115; Protein of unknown function (DUF1115)
      pfam08572
      Location:309 → 521
      PRP3; pre-mRNA processing factor 3 (PRP3)

    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_086020.1 Reference GRCr8

      Range
      186067980..186092427 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063282172.1 → XP_063138242.1  U4/U6 small nuclear ribonucleoprotein Prp3 isoform X1

      Related
      ENSRNOP00000093227.2, ENSRNOT00000104781.2

    2. XM_008761314.4 → XP_008759536.1  U4/U6 small nuclear ribonucleoprotein Prp3 isoform X2

      Conserved Domains (2) summary
      smart00311
      Location:3 → 73
      PWI; domain in splicing factors
      pfam08572
      Location:308 → 508
      PRP3; pre-mRNA processing factor 3 (PRP3)

    3. XM_039102696.2 → XP_038958624.1  U4/U6 small nuclear ribonucleoprotein Prp3 isoform X3

      Conserved Domains (2) summary
      smart00311
      Location:3 → 73
      PWI; domain in splicing factors
      pfam08572
      Location:308 → 398
      PRP3; pre-mRNA processing factor 3 (PRP3)

    RNA

    1. XR_005500314.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools