Rrn3 RRN3 RNA polymerase I transcription factor homolog (yeast) [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Rrn3provided by MGI
Official Full Name: RRN3 RNA polymerase I transcription factor homolog (yeast)provided by MGI
Primary source: MGI:MGI:1925255
See related: Ensembl:ENSMUSG00000022682 AllianceGenome:MGI:1925255
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: Tif1a; TIF-1A; E130302O19Rik
Summary: Enables RNA polymerase binding activity. Acts upstream of or within several processes, including negative regulation of intrinsic apoptotic signaling pathway by p53 class mediator; regulation of DNA-templated transcription; and transcription initiation at RNA polymerase I promoter. Predicted to be located in nucleolus. Predicted to be active in nucleus. Used to study Parkinson's disease. Orthologous to several human genes including RRN3 (RRN3 homolog, RNA polymerase I transcription factor). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in CNS E11.5 (RPKM 14.0), whole brain E14.5 (RPKM 11.1) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 16 A1; 16 9.59 cM

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	16	NC_000082.7 (13598563..13632705)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	16	NC_000082.6 (13780699..13814841)

Chromosome 16 - NC_000082.7 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: 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Conditional deletion of the Rrn3 gene inhibits RNA polymerase I transcription but does not affect pre-initiation complex formation.
Title: A unique enhancer boundary complex on the mouse ribosomal RNA genes persists after loss of Rrn3 or UBF and the inactivation of RNA polymerase I transcription.
The results exemplify how stress-induced inactivation of TIF-IA and long non-coding RNA -dependent changes of chromatin structure ensure repression of ribosomal RNA synthesis in response to thermo-stress.
Title: Heat shock represses rRNA synthesis by inactivation of TIF-IA and lncRNA-dependent changes in nucleosome positioning.
These data support a model in which activated Akt enhances rRNA synthesis both by preventing TIF-IA degradation and phosphorylating CK2alpha, which in turn phosphorylates TIF-IA.
Title: Akt activation enhances ribosomal RNA synthesis through casein kinase II and TIF-IA.
DNA binding by the ribosomal DNA transcription factor rrn3 is essential for ribosomal DNA transcription
Title: DNA binding by the ribosomal DNA transcription factor rrn3 is essential for ribosomal DNA transcription.
Ablation of TIF-IA leads to impaired nucleolar activity and results in increased levels of the proapoptotic transcription factor p53 in both neural progenitors and hippocampal neurons but induces rapid apoptosis only in neural progenitors.
Title: Activation of an endogenous suicide response after perturbation of rRNA synthesis leads to neurodegeneration in mice.
Genetic inactivation of Tif1a leads to nucleolar disruption, cell cycle arrest, and p53-mediated apoptosis.
Title: Genetic inactivation of the transcription factor TIF-IA leads to nucleolar disruption, cell cycle arrest, and p53-mediated apoptosis.
ERK-dependent phosphorylation of the transcription initiation factor TIF-IA is required for RNA polymerase I transcription and cell growth.
Title: ERK-dependent phosphorylation of the transcription initiation factor TIF-IA is required for RNA polymerase I transcription and cell growth.
Rrn3 regulates rDNA transcription by determining the steady-state concentration of the Rrn3.RNA polymerase I complex within the nucleolus. (RRN3)
Title: Rrn3 phosphorylation is a regulatory checkpoint for ribosome biogenesis.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (2) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH125263 (e-PCR)
- UniSTS:162085

14.MMHAP57FRE8.seq (e-PCR)
- UniSTS:123219

RH125396 (e-PCR)
- UniSTS:162218

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA polymerase I core binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase I core promoter sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase I core promoter sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase I general transcription initiation factor activity	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase I general transcription initiation factor activity	ISO Inferred from Sequence Orthology more info
enables RNA polymerase I general transcription initiation factor activity	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA-templated transcription initiation	IDA Inferred from Direct Assay more info	PubMed
involved_in RNA polymerase I preinitiation complex assembly	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cytoplasm organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within fibroblast proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within homeostasis of number of cells	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within in utero embryonic development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of intrinsic apoptotic signaling pathway by p53 class mediator	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of intrinsic apoptotic signaling pathway by p53 class mediator	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within nucleolus organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of neuron projection development	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of DNA-templated transcription initiation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within ribosome biogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transcription initiation at RNA polymerase I promoter	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within transcription initiation at RNA polymerase I promoter	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transcription initiation at RNA polymerase I promoter	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: RNA polymerase I-specific transcription initiation factor RRN3

Names: transcription initiation factor TIF-IA

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_001039521.1 → NP_001034610.1 RNA polymerase I-specific transcription initiation factor RRN3

See identical proteins and their annotated locations for NP_001034610.1

Status: VALIDATED

Source sequence(s)

AA437536, AK165676, BC034110, BC055781, CJ175904

Consensus CDS

CCDS27968.1

UniProtKB/Swiss-Prot

B2RS91, Q7TNE7, Q8K052

Related

ENSMUSP00000023363.7, ENSMUST00000023363.8

Conserved Domains (1) summary

pfam05327
Location:58 → 581

RRN3; RNA polymerase I specific transcription initiation factor RRN3

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000082.7 Reference GRCm39 C57BL/6J

Range

13598563..13632705

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036159727.1 → XP_036015620.1 RNA polymerase I-specific transcription initiation factor RRN3 isoform X1

Conserved Domains (1) summary

pfam05327
Location:3 → 484

RRN3; RNA polymerase I specific transcription initiation factor RRN3