prpf18 PRP18 pre-mRNA processing factor 18 homolog (yeast) [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: prpf18provided by ZNC
Official Full Name: PRP18 pre-mRNA processing factor 18 homolog (yeast)provided by ZNC
Primary source: ZFIN:ZDB-GENE-040704-45
See related: Ensembl:ENSDARG00000058306 AllianceGenome:ZFIN:ZDB-GENE-040704-45
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:91830
Summary: Predicted to be involved in generation of catalytic spliceosome for second transesterification step and nuclear retention of unspliced pre-mRNA at the site of transcription. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nuclear speck. Predicted to be part of U2-type post-spliceosomal complex; U4/U6 x U5 tri-snRNP complex; and U5 snRNP. Orthologous to human PRPF18 (pre-mRNA processing factor 18). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 18

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	18	NC_007129.7 (8402054..8408320)
105	previous assembly	GRCz10 (GCF_000002035.5)	18	NC_007129.6 (8444124..8450610)

Chromosome 18 - NC_007129.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by ZFIN

Process	Evidence Code	Pubs
acts_upstream_of_or_within RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in generation of catalytic spliceosome for second transesterification step	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within mRNA processing	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of U2-type post-spliceosomal complex	IBA Inferred from Biological aspect of Ancestor more info
part_of U4/U6 x U5 tri-snRNP complex	IBA Inferred from Biological aspect of Ancestor more info
part_of U5 snRNP	IBA Inferred from Biological aspect of Ancestor more info
located_in nuclear speck	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of spliceosomal complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: pre-mRNA-splicing factor 18

Names: PRP18 homolog

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_001002204.1 → NP_001002204.1 pre-mRNA-splicing factor 18

See identical proteins and their annotated locations for NP_001002204.1

Status: PROVISIONAL

Source sequence(s)

BC074081

UniProtKB/Swiss-Prot

A3KPM2, Q6GMH0

Related

ENSDARP00000075597.3, ENSDART00000081154.4

Conserved Domains (2) summary

smart00500
Location:79 → 122

SFM; Splicing Factor Motif, present in Prp18 and Pr04

pfam02840
Location:192 → 328

Prp18; Prp18 domain

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

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

Reference GRCz11 Primary Assembly

Genomic

NC_007129.7 Reference GRCz11 Primary Assembly

Range

8402054..8408320

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021467629.1 → XP_021323304.1 pre-mRNA-splicing factor 18 isoform X1

UniProtKB/TrEMBL

A0A8M9PFD4

Related

ENSDARP00000134309.1, ENSDART00000171974.2

Conserved Domains (2) summary

smart00500
Location:88 → 131

SFM; Splicing Factor Motif, present in Prp18 and Pr04

pfam02840
Location:204 → 340

Prp18; Prp18 domain