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    Polr1b polymerase (RNA) I polypeptide B [ Mus musculus (house mouse) ]

    Gene ID: 20017, updated on 30-Apr-2024

    Summary

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    Official Symbol
    Polr1bprovided by MGI
    Official Full Name
    polymerase (RNA) I polypeptide Bprovided by MGI
    Primary source
    MGI:MGI:108014
    See related
    Ensembl:ENSMUSG00000027395 AllianceGenome:MGI:108014
    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
    RPA2; 128kDa; RPA116; RPA135; Rpo1-2; D630020H17Rik
    Summary
    Predicted to enable several functions, including DNA binding activity; metal ion binding activity; and ribonucleoside binding activity. Predicted to contribute to DNA-directed 5'-3' RNA polymerase activity. Acts upstream of or within embryo implantation; nucleologenesis; and rRNA transcription. Located in chromosome and nucleolus. Part of RNA polymerase I complex. Is expressed in several structures, including alimentary system; heart; integumental system; nervous system; and respiratory system. Human ortholog(s) of this gene implicated in Treacher Collins syndrome 4. Orthologous to human POLR1B (RNA polymerase I subunit B). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in limb E14.5 (RPKM 5.9), CNS E11.5 (RPKM 5.4) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    2 F1; 2 62.68 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (128942891..128969980)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (129100970..129128060)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene vinculin/alpha-catenin family member 1 Neighboring gene predicted gene, 54152 Neighboring gene STARR-seq mESC enhancer starr_05657 Neighboring gene tubulin tyrosine ligase Neighboring gene predicted gene, 46764 Neighboring gene coiled-coil-helix-coiled-coil-helix domain containing 5 Neighboring gene SET domain containing 3 pseudogene

    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
    • 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. Mechanical loading induces the expression of a Pol I regulon at the onset of skeletal muscle hypertrophy. von Walden F, et al. Am J Physiol Cell Physiol, 2012 May 15. PMID 22403788
    2. Early pre-implantation lethality in mice carrying truncated mutation in the RNA polymerase 1-2 gene. Chen H, et al. Biochem Biophys Res Commun, 2008 Jan 25. PMID 18023416
    3. The nucleolus as a stress sensor: JNK2 inactivates the transcription factor TIF-IA and down-regulates rRNA synthesis. Mayer C, et al. Genes Dev, 2005 Apr 15. PMID 15805466, Free PMC Article
    4. Acetylation of UBF changes during the cell cycle and regulates the interaction of UBF with RNA polymerase I. Meraner J, et al. Nucleic Acids Res, 2006. PMID 16582105, Free PMC Article
    5. Molecular cloning and characterization of the cDNA encoding the largest subunit of mouse RNA polymerase I. Seither P, et al. Mol Gen Genet, 1997 Jun. PMID 9236775

    See all (35) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Increased transcription and protein expression of polymerase I regulon is consistent with the increase in ribosomal RNA following skeletal muscle hypertrophy.
      Title: Mechanical loading induces the expression of a Pol I regulon at the onset of skeletal muscle hypertrophy.
    2. These results indicate that the loss of rDNA transcription induced nucleolar structure disorganization and apoptosis in preimplantation embryos.
      Title: Early pre-implantation lethality in mice carrying truncated mutation in the RNA polymerase 1-2 gene.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Gene trapped (1)  1 citation
    • Endonuclease-mediated (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
    		  
    contributes_to DNA-directed 5'-3' RNA polymerase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-directed 5'-3' RNA polymerase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA/RNA hybrid binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to RNA polymerase I activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotidyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ribonucleoside binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within embryo development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within embryo implantation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within nucleologenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within rRNA transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in rRNA transcription 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 chromosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol 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 TAS
    Traceable Author Statement
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    DNA-directed RNA polymerase I subunit RPA2
    Names
    DNA-directed RNA polymerase I 135 kDa polypeptide
    DNA-directed RNA polymerase I 135kDa polypeptide
    RNA polymerase 1-2, 128 kDa subunit
    RNA polymerase I subunit 2
    NP_033112.2
    XP_006499088.1

    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_009086.2 → NP_033112.2  DNA-directed RNA polymerase I subunit RPA2

      See identical proteins and their annotated locations for NP_033112.2

      Status: VALIDATED

      Source sequence(s)
      AK143501, BB860575, U58280
      Consensus CDS
      CCDS16720.1
      UniProtKB/Swiss-Prot
      P70700, Q3UMX7
      UniProtKB/TrEMBL
      Q6P9Q2
      Related
      ENSMUSP00000099494.5, ENSMUST00000103205.11
      Conserved Domains (4) summary
      COG0085
      Location:35 → 1134
      RpoB; DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]
      cd00653
      Location:38 → 1133
      RNA_pol_B_RPB2; RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase ...
      pfam04561
      Location:186 → 375
      RNA_pol_Rpb2_2; RNA polymerase Rpb2, domain 2
      pfam06883
      Location:563 → 616
      RNA_pol_Rpa2_4; RNA polymerase I, Rpa2 specific domain

    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_000068.8 Reference GRCm39 C57BL/6J

      Range
      128942891..128969980
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006499025.4 → XP_006499088.1  DNA-directed RNA polymerase I subunit RPA2 isoform X1

      UniProtKB/TrEMBL
      Q6P9Q2
      Conserved Domains (2) summary
      cd00653
      Location:38 → 1079
      RNA_pol_B_RPB2; RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase ...
      pfam04561
      Location:186 → 375
      RNA_pol_Rpb2_2; RNA polymerase Rpb2, domain 2

    RNA

    1. XR_374430.5 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P70700.2 GenPept UniProtKB/Swiss-Prot:P70700

    Gene LinkOut

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