U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

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

    Gene ID: 64424, updated on 12-May-2024

    Summary

    Go to the top of the page Help
    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, Apr 2022]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 4.3), CNS E14 (RPKM 3.1) and 28 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    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

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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 pageHelp

    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. 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
    3. 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
    4. Constitutive and strong association of PAF53 with RNA polymerase I. Seither P, et al. Chromosoma, 1997 Sep. PMID 9254723
    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 (30) 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

    Go to the top of the page Help

    Alleles

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

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    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 DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 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 DNA-directed RNA polymerase complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 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
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

    Go to the top of the page Help
    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)

    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)

    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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous