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    Prpf6 pre-mRNA processing factor 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 366276, updated on 9-Dec-2024

    Summary

    Official Symbol
    Prpf6provided by RGD
    Official Full Name
    pre-mRNA processing factor 6provided by RGD
    Primary source
    RGD:1307103
    See related
    EnsemblRapid:ENSRNOG00000051498 AllianceGenome:RGD:1307103
    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
    Also known as
    RGD1307103
    Summary
    Predicted to enable several functions, including identical protein binding activity; protein-macromolecule adaptor activity; and ribonucleoprotein complex binding activity. Predicted to be involved in spliceosomal tri-snRNP complex assembly. Predicted to act upstream of or within RNA localization and positive regulation of transcription by RNA polymerase II. Predicted to be located in nuclear speck. Predicted to be part of nucleus. Human ortholog(s) of this gene implicated in retinitis pigmentosa 60. Orthologous to human PRPF6 (pre-mRNA processing factor 6). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 190.7), Adrenal (RPKM 184.8) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Prpf6 in Genome Data Viewer
    Location:
    3q43
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (189084465..189148705)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (168706952..168771191)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (177098137..177162937)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene zinc finger protein 512B Neighboring gene sterile alpha motif domain containing 10 Neighboring gene long intergenic non-protein coding RNA 176 Neighboring gene RNA, U6 small nuclear 181

    Genomic regions, transcripts, and products

    Expression

    • 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

    Pathways from PubChem

    Interactions

    General gene information

    Clone Names

    • MGC156816

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding  
    enables RNA binding  
    enables identical protein binding  
    enables identical protein binding  
    enables protein-macromolecule adaptor activity  
    enables protein-macromolecule adaptor activity  
    enables protein-macromolecule adaptor activity  
    enables ribonucleoprotein complex binding  
    enables ribonucleoprotein complex binding  
    Component Evidence Code Pubs
    part_of U2-type precatalytic spliceosome  
    part_of U2-type precatalytic spliceosome  
    part_of U2-type precatalytic spliceosome  
    part_of U4/U6 x U5 tri-snRNP complex  
    part_of U4/U6 x U5 tri-snRNP complex  
    part_of U4/U6 x U5 tri-snRNP complex  
    part_of U5 snRNP  
    part_of U5 snRNP  
    part_of catalytic step 2 spliceosome  
    part_of catalytic step 2 spliceosome  
    part_of catalytic step 2 spliceosome  
    located_in nuclear speck  
    located_in nuclear speck  
    located_in nuclear speck  
    located_in nucleus  
    located_in nucleus  

    General protein information

    Preferred Names
    pre-mRNA-processing factor 6
    Names
    PRP6 homolog
    PRP6 pre-mRNA processing factor 6 homolog
    PRP6 pre-mRNA splicing factor 6 homolog
    U5 snRNP-associated 102 kDa protein
    U5-102 kDa protein

    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_001079766.1NP_001073234.1  pre-mRNA-processing factor 6

      See identical proteins and their annotated locations for NP_001073234.1

      Status: PROVISIONAL

      Source sequence(s)
      BC128779
      UniProtKB/Swiss-Prot
      A1A5S1
      UniProtKB/TrEMBL
      A0A8I6AVE4
      Related
      ENSRNOP00000073536.2, ENSRNOT00000083423.3
      Conserved Domains (3) summary
      TIGR02917
      Location:290806
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00006
      Location:708738
      TPR; TPR repeat [structural motif]
      pfam06424
      Location:13169
      PRP1_N; PRP1 splicing factor, N-terminal

    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_086021.1 Reference GRCr8

      Range
      189084465..189148705
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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