Pcf11 PCF11 cleavage and polyadenylation factor subunit [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pcf11provided by RGD
Official Full Name: PCF11 cleavage and polyadenylation factor subunitprovided by RGD
Primary source: RGD:1563397
See related: EnsemblRapid:ENSRNOG00000009891 AllianceGenome:RGD:1563397
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1563397
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: Biased expression in Thymus (RPKM 183.5), Spleen (RPKM 133.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q32

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (156109724..156136950, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (146694045..146724030, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (157463014..157494134, complement)

Chromosome 1 - NC_086019.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D19321 (e-PCR)
- UniSTS:124804

RH126246 (e-PCR)
- UniSTS:162954

RH132167 (e-PCR)
- UniSTS:215450

Gene Ontology Provided by RGD

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	ISO Inferred from Sequence Orthology more info
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in mRNA 3'-end processing	IEA Inferred from Electronic Annotation more info
involved_in termination of RNA polymerase II transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in termination of RNA polymerase II transcription	ISO Inferred from Sequence Orthology 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
located_in mitochondrion	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: pre-mRNA cleavage complex 2 protein Pcf11

Names: PCF11, cleavage and polyadenylation factor subunit, homolog; 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_001427432.1 → NP_001414361.1 pre-mRNA cleavage complex 2 protein Pcf11

Status: VALIDATED

Source sequence(s)

JAXUCZ010000001

UniProtKB/TrEMBL

D3ZY40

Related

ENSRNOP00000013552.6, ENSRNOT00000013552.9

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

156109724..156136950 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008759657.4 → XP_008757879.2 pre-mRNA cleavage complex 2 protein Pcf11 isoform X1

UniProtKB/TrEMBL

A0A8I6GJT1, D3ZY40

Related

ENSRNOP00000092470.1, ENSRNOT00000104348.2

Conserved Domains (3) summary

TIGR04523
Location:378 → 653

Mplasa_alph_rch; helix-rich Mycoplasma protein

pfam09606
Location:1174 → 1497

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

cd16982
Location:204 → 330

CID_Pcf11; CID (CTD-Interacting Domain) of Pcf11