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Prpf19 pre-mRNA processing factor 19 [ Rattus norvegicus (Norway rat) ]

Gene ID: 246216, updated on 25-Nov-2021

Summary

Official Symbol
Prpf19provided by RGD
Official Full Name
pre-mRNA processing factor 19provided by RGD
Primary source
RGD:708496
See related
EnsemblRapid:ENSRNOG00000020897
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
Prp19
Summary
human homolog is involved in DNA double strand break repair [RGD, Feb 2006]
Expression
Biased expression in Adrenal (RPKM 304.7), Muscle (RPKM 253.7) and 9 other tissues See more
Orthologs
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Genomic context

See Prpf19 in Genome Data Viewer
Location:
1q43
Exon count:
16
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (207541582..207552664)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (226947065..226958147)

Chromosome 1 - NC_051336.1Genomic Context describing neighboring genes Neighboring gene solute carrier family 15 member 3 Neighboring gene transmembrane protein 132A Neighboring gene transmembrane protein 109 Neighboring gene zona pellucida glycoprotein 1 Neighboring gene prostaglandin D2 receptor 2

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

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC124562

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables molecular_function ND
No biological Data available
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables ubiquitin protein ligase activity ISO
Inferred from Sequence Orthology
more info
 
enables ubiquitin protein ligase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables ubiquitin-protein transferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables ubiquitin-ubiquitin ligase activity ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in DNA damage checkpoint signaling ISO
Inferred from Sequence Orthology
more info
 
involved_in DNA damage checkpoint signaling ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in cellular protein localization ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular protein localization ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in double-strand break repair via nonhomologous end joining ISO
Inferred from Sequence Orthology
more info
 
involved_in double-strand break repair via nonhomologous end joining ISS
Inferred from Sequence or Structural Similarity
more info
 
acts_upstream_of_or_within inner cell mass cell proliferation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within lipid biosynthetic process ISO
Inferred from Sequence Orthology
more info
 
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
 
involved_in mRNA splicing, via spliceosome ISS
Inferred from Sequence or Structural Similarity
more info
 
acts_upstream_of_or_within negative regulation of neuron differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of astrocyte differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of astrocyte differentiation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of neuron differentiation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in proteasomal protein catabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in proteasomal protein catabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in protein K63-linked ubiquitination ISO
Inferred from Sequence Orthology
more info
 
involved_in protein K63-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
acts_upstream_of_or_within protein polyubiquitination ISO
Inferred from Sequence Orthology
more info
 
involved_in spliceosomal complex assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in spliceosomal tri-snRNP complex assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in spliceosomal tri-snRNP complex assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
part_of Prp19 complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of Prp19 complex ISO
Inferred from Sequence Orthology
more info
 
part_of Prp19 complex ISS
Inferred from Sequence or Structural Similarity
more info
 
part_of U2-type catalytic step 1 spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of U2-type catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
 
part_of catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
 
is_active_in cellular_component ND
No biological Data available
more info
 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in lipid droplet IEA
Inferred from Electronic Annotation
more info
 
located_in lipid droplet ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear speck ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in site of double-strand break ISO
Inferred from Sequence Orthology
more info
 
located_in site of double-strand break ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in spindle IEA
Inferred from Electronic Annotation
more info
 
NOT part_of spliceosomal complex ISO
Inferred from Sequence Orthology
more info
 
part_of spliceosomal complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
pre-mRNA-processing factor 19
Names
PRP19/PSO4 homolog
PRP19/PSO4 pre-mRNA processing factor 19 homolog
RING-type E3 ubiquitin transferase PRP19
neuronal differentiation-related gene protein
NP_647549.2
XP_006231076.1

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_139333.3NP_647549.2  pre-mRNA-processing factor 19

    See identical proteins and their annotated locations for NP_647549.2

    Status: PROVISIONAL

    Source sequence(s)
    BC107669
    UniProtKB/Swiss-Prot
    Q9JMJ4
    Related
    ENSRNOP00000081671.1, ENSRNOT00000102359.1
    Conserved Domains (4) summary
    cd00200
    Location:223503
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:224262
    7WD40; WD40 repeat [structural motif]
    cd16656
    Location:456
    RING-Ubox_PRP19; U-box domain, a modified RING finger, found in pre-mRNA-processing factor 19 (Prp19) and similar proteins
    pfam08606
    Location:69133
    Prp19; Prp19/Pso4-like

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

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

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051336.1 Reference mRatBN7.2 Primary Assembly

    Range
    207541582..207552664
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006231014.4XP_006231076.1  pre-mRNA-processing factor 19 isoform X1

    See identical proteins and their annotated locations for XP_006231076.1

    Related
    ENSRNOP00000028373.7, ENSRNOT00000028373.7
    Conserved Domains (4) summary
    cd00200
    Location:242522
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:243281
    7WD40; WD40 repeat [structural motif]
    cd16656
    Location:456
    RING-Ubox_PRP19; U-box domain, a modified RING finger, found in pre-mRNA-processing factor 19 (Prp19) and similar proteins
    pfam08606
    Location:69152
    Prp19; Prp19/Pso4-like
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