pcf11 PCF11 cleavage and polyadenylation factor subunit [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: pcf11provided by ZNC
Official Full Name: PCF11 cleavage and polyadenylation factor subunitprovided by ZNC
Primary source: ZFIN:ZDB-GENE-041114-175
See related: Ensembl:ENSDARG00000044625 AllianceGenome:ZFIN:ZDB-GENE-041114-175
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:92226; im:6912257; im:7138745; wu:fc47a05; zgc:175013
Summary: Predicted to enable RNA polymerase II complex binding activity and mRNA binding activity. Acts upstream of or within regulation of termination of DNA-templated transcription. Predicted to be part of mRNA cleavage factor complex. Predicted to be active in cytoplasm. Orthologous to human PCF11 (PCF11 cleavage and polyadenylation factor subunit). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 21

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	21	NC_007132.7 (22878834..22888375)
105	previous assembly	GRCz10 (GCF_000002035.5)	21	NC_007132.6 (22842229..22851770)

Chromosome 21 - NC_007132.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

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?

PCF11 selectively attenuates the expression of other transcriptional regulators by premature cleavage/polyadenylation and termination.
Title: Selective Roles of Vertebrate PCF11 in Premature and Full-Length Transcript Termination.

Submit: New GeneRIF Correction

General gene information

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Markers

fc47a05 (e-PCR)
- UniSTS:189197

fd25f06.y1 (e-PCR)
- UniSTS:195372

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables RNA polymerase II complex binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II complex binding	IEA Inferred from Electronic Annotation more info
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol binding	IEA Inferred from Electronic Annotation more info
enables ubiquitin binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within mRNA 3'-end processing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of termination of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in termination of RNA polymerase II transcription	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within termination of RNA polymerase II transcription	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
part_of mRNA cleavage factor complex	IBA Inferred from Biological aspect of Ancestor more info
part_of mRNA cleavage factor complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: pre-mRNA cleavage complex 2 protein Pcf11

Names: cleavage and polyadenylation factor subunit, 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_001007307.1 → NP_001007308.1 pre-mRNA cleavage complex 2 protein Pcf11

See identical proteins and their annotated locations for NP_001007308.1

Status: PROVISIONAL

Source sequence(s)

BC085652

UniProtKB/TrEMBL

Q5U393

Related

ENSDARP00000065561.4, ENSDART00000065562.5

Conserved Domains (2) summary

cd03562
Location:11 → 122

CID; CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA ...

pfam16496
Location:441 → 554

SWIRM-assoc_2; SWIRM-associated domain at the N-terminal