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

Summary

Official Symbol: Prpf19provided by RGD
Official Full Name: pre-mRNA processing factor 19provided by RGD
Primary source: RGD:708496
See related: Ensembl:ENSRNOG00000020897 AllianceGenome:RGD:708496
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: Predicted to enable identical protein binding activity and ubiquitin-ubiquitin ligase activity. Involved in positive regulation of astrocyte differentiation. Acts upstream of or within positive regulation of neuron differentiation. Located in nucleus. Orthologous to human PRPF19 (pre-mRNA processing factor 19). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Adrenal (RPKM 304.7), Muscle (RPKM 253.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q43

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (216966104..216977549)
RS_2023_06	previous assembly	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_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

these results indicate that PRP19beta activates the gp130/Janus kinase (JAK)/STAT signaling pathway during astrocyte differentiation via PTP1B ubiquitination
Title: The U-box-type ubiquitin ligase PRP19β regulates astrocyte differentiation via ubiquitination of PTP1B.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH131344 (e-PCR)
- UniSTS:214627

D19Wsu55e (e-PCR), detects polymorphism
- UniSTS:142226

RH124871 (e-PCR)
- UniSTS:161693

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables ubiquitin protein ligase activity	IEA Inferred from Electronic Annotation more info
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
enables ubiquitin-ubiquitin ligase activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin-ubiquitin ligase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA damage checkpoint signaling	IEA Inferred from Electronic Annotation more info
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 DNA repair	IEA Inferred from Electronic Annotation more info
involved_in double-strand break repair via nonhomologous end joining	IEA Inferred from Electronic Annotation 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
involved_in lipid biosynthetic process	IEA Inferred from Electronic Annotation 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
involved_in mRNA splicing, via spliceosome	IEA Inferred from Electronic Annotation more info
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
involved_in positive regulation of mRNA splicing, via spliceosome	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation more info
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	IEA Inferred from Electronic Annotation 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
involved_in protein localization	IEA Inferred from Electronic Annotation more info
involved_in protein localization	ISO Inferred from Sequence Orthology more info
involved_in protein localization	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	IEA Inferred from Electronic Annotation more info
involved_in spliceosomal complex assembly	ISO Inferred from Sequence Orthology more info
involved_in spliceosomal tri-snRNP complex assembly	IEA Inferred from Electronic Annotation 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 DNA replication factor A complex	IEA Inferred from Electronic Annotation more info
part_of DNA replication factor A complex	ISO Inferred from Sequence Orthology more info
part_of DNA replication factor A complex	ISS Inferred from Sequence or Structural Similarity more info
part_of Prp19 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of Prp19 complex	IEA Inferred from Electronic Annotation more info
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
part_of U2-type catalytic step 2 spliceosome	IEA Inferred from Electronic Annotation more info
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 cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
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	IEA Inferred from Electronic Annotation 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 nucleoplasm	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation 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

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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

EC 2.3.2.27

XP_006231076.1

EC 2.3.2.27

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)

NM_139333.3 → NP_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

Q3B7C6, Q9JMJ4

UniProtKB/TrEMBL

A0A8I5ZTG2, A6I070

Related

ENSRNOP00000081671.1, ENSRNOT00000102359.1

Conserved Domains (4) summary

cd00200
Location:223 → 503

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:224 → 262

7WD40; WD40 repeat [structural motif]

cd16656
Location:4 → 56

RING-Ubox_PRP19; U-box domain, a modified RING finger, found in pre-mRNA-processing factor 19 (Prp19) and similar proteins

pfam08606
Location:69 → 133

Prp19; Prp19/Pso4-like

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

NC_086019.1 Reference GRCr8

Range

216966104..216977549

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006231014.5 → XP_006231076.1 pre-mRNA-processing factor 19 isoform X1

See identical proteins and their annotated locations for XP_006231076.1

UniProtKB/TrEMBL

A0A8I5ZTG2, A0A8L2QF86

Related

ENSRNOP00000028373.7

Conserved Domains (4) summary

cd00200
Location:242 → 522

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:243 → 281

7WD40; WD40 repeat [structural motif]

cd16656
Location:4 → 56

RING-Ubox_PRP19; U-box domain, a modified RING finger, found in pre-mRNA-processing factor 19 (Prp19) and similar proteins

pfam08606
Location:69 → 152

Prp19; Prp19/Pso4-like