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    polr2a RNA polymerase II subunit A [ Danio rerio (zebrafish) ]

    Gene ID: 553347, updated on 2-Nov-2024

    Summary

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    Official Symbol
    polr2aprovided by ZNC
    Official Full Name
    RNA polymerase II subunit Aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-041008-78
    See related
    Ensembl:ENSDARG00000099966 AllianceGenome:ZFIN:ZDB-GENE-041008-78
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    im:7136071
    Summary
    Predicted to enable DNA binding activity; DNA-directed 5'-3' RNA polymerase activity; and metal ion binding activity. Predicted to contribute to RNA polymerase II activity. Predicted to act upstream of or within transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of RNA polymerase II, core complex. Is expressed in blastomere. Orthologous to human POLR2A (RNA polymerase II subunit A). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See polr2a in Genome Data Viewer
    Location:
    chromosome: 12
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 12 NC_007123.7 (22560131..22573297)
    105 previous assembly GRCz10 (GCF_000002035.5) 12 NC_007123.6 (22438897..22451986)

    Chromosome 12 - NC_007123.7Genomic Context describing neighboring genes Neighboring gene sex hormone-binding globulin Neighboring gene zinc finger and BTB domain containing 4 Neighboring gene capping protein (actin filament), gelsolin-like b Neighboring gene si:dkey-219e21.2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Duplicated zebrafish (Danio rerio) inositol phosphatases inpp5ka and inpp5kb diverged in expression pattern and function. Shukla D, et al. Dev Genes Evol, 2023 Jun. PMID 37184573, Free PMC Article
    2. Brd4 associates with mitotic chromosomes throughout early zebrafish embryogenesis. Toyama R, et al. Dev Dyn, 2008 Jun. PMID 18498094, Free PMC Article
    3. Identification of Spt5 target genes in zebrafish development reveals its dual activity in vivo. Krishnan K, et al. PLoS One, 2008. PMID 18978947, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-directed 5'-3' RNA polymerase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    contributes_to RNA polymerase II 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 transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of DNA-directed RNA polymerase complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of RNA polymerase II, core complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    DNA-directed RNA polymerase II subunit RPB1
    Names
    polymerase (RNA) II (DNA directed) polypeptide A
    XP_005156282.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007123.7 Reference GRCz11 Primary Assembly

      Range
      22560131..22573297
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005156225.5 → XP_005156282.1  DNA-directed RNA polymerase II subunit RPB1

      UniProtKB/TrEMBL
      A0A0R4IMS9, A0A8M2B2W1
      Related
      ENSDARP00000135038.1, ENSDART00000172066.2
      Conserved Domains (8) summary
      cd02584
      Location:1055 → 1473
      RNAP_II_Rpb1_C; Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain
      smart01104
      Location:1506 → 1611
      CTD; Spt5 C-terminal nonapeptide repeat binding Spt4
      PRK08566
      Location:16 → 892
      PRK08566; DNA-directed RNA polymerase subunit A'; Validated
      cd02733
      Location:17 → 873
      RNAP_II_RPB1_N; Largest subunit (Rpb1) of eukaryotic RNA polymerase II (RNAP II), N-terminal domain
      pfam04992
      Location:893 → 1076
      RNA_pol_Rpb1_6; RNA polymerase Rpb1, domain 6
      pfam04998
      Location:827 → 1425
      RNA_pol_Rpb1_5; RNA polymerase Rpb1, domain 5
      pfam11786
      Location:1494 → 1571
      Aft1_HRA; Aft1 HRA domain
      cl23782
      Location:1869 → 1948
      RCR; Chitin synthesis regulation, resistance to Congo red
    Nucleotide Protein Strain
    Heading Accession and Version

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