Pcf11 PCF11 cleavage and polyadenylation factor subunit [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Pcf11provided by MGI
Official Full Name: PCF11 cleavage and polyadenylation factor subunitprovided by MGI
Primary source: MGI:MGI:1919579
See related: Ensembl:ENSMUSG00000041328 AllianceGenome:MGI:1919579
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: 2500001H09Rik; 5730417B17Rik
Summary: Predicted to enable RNA polymerase II complex binding activity and mRNA binding activity. Predicted to be involved in mRNA polyadenylation and termination of RNA polymerase II transcription. Predicted to be located in mitochondrion and nucleoplasm. 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, Apr 2022]
Expression: Ubiquitous expression in testis adult (RPKM 8.7), CNS E11.5 (RPKM 7.9) and 28 other tissues See more
Orthologs: human all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 7; 7 E1

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
109	current	GRCm39 (GCF_000001635.27)	7	NC_000073.7 (92292666..92319284, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	7	NC_000073.6 (92643458..92670080, complement)

Chromosome 7 - NC_000073.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

PCF11 is autoregulated through a conserved IPA site, the removal of which leads to global activation of PASs close to gene promotors. Therefore, PCF11 uses distinct mechanisms to regulate genes of different sizes, and its autoregulation maintains homeostasis of PAS usage in the cell.
Title: Regulation of Intronic Polyadenylation by PCF11 Impacts mRNA Expression of Long Genes.

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

D19321 (e-PCR)
- UniSTS:124804

RH126246 (e-PCR)
- UniSTS:162954

Homology

Homologs of the Pcf11 gene: The Pcf11 gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, rat, chicken, and zebrafish.
Orthologs from Annotation Pipeline: 496 organisms have orthologs with human gene Pcf11
Orthologs

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA polymerase II complex binding	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info	PubMed

Process	Evidence Code	Pubs
involved_in mRNA polyadenylation	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in termination of RNA polymerase II transcription	IBA Inferred from Biological aspect of Ancestor more info	PubMed

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info	PubMed
part_of mRNA cleavage factor complex	IBA Inferred from Biological aspect of Ancestor more info	PubMed
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: pre-mRNA cleavage complex 2 protein Pcf11

Names: cleavage and polyadenylation factor subunit 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_029078.3 → NP_083354.3 pre-mRNA cleavage complex 2 protein Pcf11

See identical proteins and their annotated locations for NP_083354.3

Status: VALIDATED

Source sequence(s)

AK173035, BC030492, CJ046746

Consensus CDS

CCDS52311.1

UniProtKB/TrEMBL

G3X9Z4, Q69ZY3, Q8K0S1

Related

ENSMUSP00000113717.2, ENSMUST00000119954.9

Conserved Domains (1) summary

cd03562
Location:19 → 130

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 ...

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...

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

Reference GRCm39 C57BL/6J

Genomic

NC_000073.7 Reference GRCm39 C57BL/6J

Range

92292666..92319284 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006508272.5 → XP_006508335.1 pre-mRNA cleavage complex 2 protein Pcf11 isoform X1

Related

ENSMUSP00000115278.2, ENSMUST00000151177.2

Conserved Domains (3) summary

PTZ00121
Location:311 → 471

PTZ00121; MAEBL; Provisional

pfam09606
Location:981 → 1328

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal

cd16982
Location:19 → 145

CID_Pcf11; CID (CTD-Interacting Domain) of Pcf11