prpf4 pre-mRNA splicing tri-snRNP complex factor PRPF4 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: prpf4provided by ZNC
Official Full Name: pre-mRNA splicing tri-snRNP complex factor PRPF4provided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-5143
See related: Ensembl:ENSDARG00000067639 AllianceGenome:ZFIN:ZDB-GENE-030131-5143
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: zgc:65943; mg:ab03a02
Summary: Predicted to enable U4 snRNA binding activity and U6 snRNA binding activity. Acts upstream of or within chordate embryonic development; mRNA splicing, via spliceosome; and sensory system development. Predicted to be located in nuclear speck. Predicted to be part of U4/U6 x U5 tri-snRNP complex. Is expressed in brain; eye; posterior lateral line primordium; and spinal cord. Used to study retinitis pigmentosa. Human ortholog(s) of this gene implicated in retinitis pigmentosa 70. Orthologous to human PRPF4 (pre-mRNA processing factor 4). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: chromosome: 5

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	5	NC_007116.7 (57442302..57453791)
105	previous assembly	GRCz10 (GCF_000002035.5)	5	NC_007116.6 (56772085..56783574)

Chromosome 5 - NC_007116.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Cells in the brain and spinal cord gradually undergo p53-dependent apoptosis after 28 hpf in prpf4(t243) mutants, suggesting that a widespread function of prpf4 in neural cell survival.
Title: prpf4 is essential for cell survival and posterior lateral line primordium migration in zebrafish.

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

fc68c09.x1 (e-PCR)
- UniSTS:194243

AI106082 (e-PCR)
- UniSTS:206845

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables U4 snRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables U6 snRNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within chordate embryonic development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryo development ending in birth or egg hatching	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within mRNA splicing, via spliceosome	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within posterior lateral line neuromast development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within posterior lateral line neuromast primordium migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retina development in camera-type eye	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of U4/U6 x U5 tri-snRNP complex	IBA Inferred from Biological aspect of Ancestor more info
part_of ribonucleoprotein complex	IEA Inferred from Electronic Annotation more info

General protein information

Go to the top of the page Help

Preferred Names: U4/U6 small nuclear ribonucleoprotein Prp4

Names: PRP4 pre-mRNA processing factor 4 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)

NM_199755.1 → NP_956049.1 U4/U6 small nuclear ribonucleoprotein Prp4

See identical proteins and their annotated locations for NP_956049.1

Status: PROVISIONAL

Source sequence(s)

BC056720

UniProtKB/TrEMBL

A8KC16, K7DXY3, Q6PH45

Related

ENSDARP00000088166.3, ENSDART00000097395.4

Conserved Domains (4) summary

smart00500
Location:88 → 124

SFM; Splicing Factor Motif, present in Prp18 and Pr04

COG2319
Location:192 → 504

WD40; WD40 repeat [General function prediction only]

cd00200
Location:218 → 504

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:219 → 256

7WD40; WD40 repeat [structural motif]