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Polr1e polymerase (RNA) I polypeptide E [ Mus musculus (house mouse) ]

Gene ID: 64424, updated on 2-Nov-2024

Summary

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Official Symbol
Polr1eprovided by MGI
Official Full Name
polymerase (RNA) I polypeptide Eprovided by MGI
Primary source
MGI:MGI:1929022
See related
Ensembl:ENSMUSG00000028318 AllianceGenome:MGI:1929022
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
53kDa; Paf53; Praf1; D030019D19Rik
Summary
Enables RNA polymerase I general transcription initiation factor binding activity. Acts upstream of or within RNA polymerase I preinitiation complex assembly. Located in nucleolus. Part of RNA polymerase I complex. Is expressed in several structures, including alimentary system; cardiovascular system; genitourinary system; nervous system; and sensory organ. Orthologous to human POLR1E (RNA polymerase I subunit E). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 4.3), CNS E14 (RPKM 3.1) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Polr1e in Genome Data Viewer
Location:
4 B1; 4 23.67 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (45018609..45034279)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (45018609..45034279)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene zinc finger and BTB domain containing 5 Neighboring gene RIKEN cDNA 1700055D18 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:45025246-45025433 Neighboring gene STARR-positive B cell enhancer ABC_E71 Neighboring gene STARR-seq mESC enhancer starr_10090 Neighboring gene F-box protein 10 Neighboring gene predicted gene, 30939 Neighboring gene STARR-seq mESC enhancer starr_10091 Neighboring gene translocase of outer mitochondrial membrane 5

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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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Related articles in PubMed

  1. PAF53 is essential in mammalian cells: CRISPR/Cas9 fails to eliminate PAF53 expression. Rothblum LI, et al. Gene, 2017 May 15. PMID 28042089, Free PMC Article
  2. TBK1 directly engages Akt/PKB survival signaling to support oncogenic transformation. Ou YH, et al. Mol Cell, 2011 Feb 18. PMID 21329883, Free PMC Article
  3. Characterization of the interactions of mammalian RNA polymerase I associated proteins PAF53 and PAF49. Penrod Y, et al. Biochemistry, 2012 Aug 21. PMID 22849406, Free PMC Article
  4. PAF49: An RNA Polymerase I subunit essential for rDNA transcription and stabilization of PAF53. McNamar R, et al. J Biol Chem, 2023 Aug. PMID 37356716, Free PMC Article
  5. RNA polymerase I associated factor 53 binds to the nucleolar transcription factor UBF and functions in specific rDNA transcription. Hanada K, et al. EMBO J, 1996 May 1. PMID 8641287, Free PMC Article

See all (33) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. PAF49: An RNA Polymerase I subunit essential for rDNA transcription and stabilization of PAF53.
    Title: PAF49: An RNA Polymerase I subunit essential for rDNA transcription and stabilization of PAF53.
  2. DNA sequencing demonstrated that in the absence of ectopic PAF53 expression, cells demonstrated unique means of surviving; including recombination or the utilization of alternative reading frames. We never observed a clone in which one PAF53 gene is expressed, unless there was also ectopic expression In the absence of ectopic gene expression, the gene products of both endogenous genes were expressed, irrespective of wheth
    Title: PAF53 is essential in mammalian cells: CRISPR/Cas9 fails to eliminate PAF53 expression.
  3. yeast A34.5/A49 and mammalian PAF49/PAF53 heterodimeric complexes interact through species-specific sequence elements that appear to assume similar structural motifs.
    Title: Characterization of the interactions of mammalian RNA polymerase I associated proteins PAF53 and PAF49.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (1) 

Pathways from PubChem

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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

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA polymerase I general transcription initiation factor binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in RNA polymerase I preinitiation complex assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within RNA polymerase I preinitiation complex assembly IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in nucleolar large rRNA transcription by RNA polymerase I ISO
Inferred from Sequence Orthology
more info
  
involved_in nucleolar large rRNA transcription by RNA polymerase I ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in transcription elongation by RNA polymerase I IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in transcription initiation at RNA polymerase I promoter ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of RNA polymerase I complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of RNA polymerase I complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of RNA polymerase I complex ISO
Inferred from Sequence Orthology
more info
  
located_in fibrillar center IEA
Inferred from Electronic Annotation
more info
  
located_in fibrillar center ISO
Inferred from Sequence Orthology
more info
  
located_in nucleolus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
DNA-directed RNA polymerase I subunit RPA49
Names
DNA-directed RNA polymerase I subunit E
RNA polymerase I associated factor (Paf53)
RNA polymerase I subunit A49
RNA polymerase I-associated factor 53
polymerase (RNA) I associated factor 1

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)

  1. NM_001285800.1 → NP_001272729.1  DNA-directed RNA polymerase I subunit RPA49 isoform a

    See identical proteins and their annotated locations for NP_001272729.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AK083948, AK132556, AL824706
    Consensus CDS
    CCDS71378.1
    UniProtKB/Swiss-Prot
    B1AXQ6, B1AXQ7, Q62034, Q8BQG9, Q8K202
    UniProtKB/TrEMBL
    G8JL51
    Related
    ENSMUSP00000029999.9, ENSMUST00000029999.15
    Conserved Domains (1) summary
    pfam06870
    Location:51 → 480
    RNA_pol_I_A49; A49-like RNA polymerase I associated factor

  2. NM_022811.3 → NP_073722.1  DNA-directed RNA polymerase I subunit RPA49 isoform b

    See identical proteins and their annotated locations for NP_073722.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two alternate exons that result in the loss of an in-frame segment in the central coding region, compared to variant 1. The encoded isoform (b) is shorter than isoform a.
    Source sequence(s)
    AK083948, AK132556, AL824706
    Consensus CDS
    CCDS18131.1
    UniProtKB/TrEMBL
    G8JL51, Q3V1B9
    Related
    ENSMUSP00000121007.2, ENSMUST00000133157.8
    Conserved Domains (1) summary
    pfam06870
    Location:51 → 432
    RNA_pol_I_A49; A49-like RNA polymerase I associated factor

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

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    45018609..45034279
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8K202.2 GenPept UniProtKB/Swiss-Prot:Q8K202

Gene LinkOut

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