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    POLR2I RNA polymerase II subunit I [ Homo sapiens (human) ]

    Gene ID: 5438, updated on 5-Mar-2024

    Summary

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    Official Symbol
    POLR2Iprovided by HGNC
    Official Full Name
    RNA polymerase II subunit Iprovided by HGNC
    Primary source
    HGNC:HGNC:9196
    See related
    Ensembl:ENSG00000105258 MIM:180662; AllianceGenome:HGNC:9196
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    RPB9; hRPB14.5
    Summary
    This gene encodes a subunit of RNA polymerase II, the polymerase responsible for synthesizing messenger RNA in eukaryotes. This subunit, in combination with two other polymerase subunits, forms the DNA binding domain of the polymerase, a groove in which the DNA template is transcribed into RNA. The product of this gene has two zinc finger motifs with conserved cysteines and the subunit does possess zinc binding activity. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in testis (RPKM 23.3), brain (RPKM 15.2) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    Location:
    19q13.12
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (36113709..36114875, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (38659527..38660693, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (36604611..36605777, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101927572 Neighboring gene THAP domain containing 8 Neighboring gene RNY5 pseudogene 10 Neighboring gene WD repeat domain 62 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:36591509-36592010 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:36601644-36602274 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:36602275-36602904 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36604761-36605272 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14515 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10547 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14516 Neighboring gene ovo like zinc finger 3 Neighboring gene uncharacterized LOC105372385 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14517 Neighboring gene tubulin folding cofactor B

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Structure of the gene encoding the 14.5 kDa subunit of human RNA polymerase II. Acker J, et al. Nucleic Acids Res, 1993 Nov 25. PMID 8265347, Free PMC Article
    2. Chromosomal localization of human RNA polymerase II subunit genes. Acker J, et al. Genomics, 1994 Apr. PMID 8034326
    3. Interactions between the full complement of human RNA polymerase II subunits. Schaller S, et al. FEBS Lett, 1999 Nov 19. PMID 10567706
    4. [Positive and negative regulation of transcription from HIV provirus]. Okamoto T. Uirusu, 2011 Jun. PMID 21972559
    5. Inhibition of HIV-1 virus replication using small soluble Tat peptides. Agbottah E, et al. Virology, 2006 Feb 20. PMID 16289656

    See all (133) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

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    Replication interactions

    Interaction Pubs
    Knockdown of polymerase (RNA) II (DNA directed) polypeptide I (POLR2I, 14.5kDa) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env The transcription factors and kinases c-Jun, JNK, MEK, p38 MAPK, STAT-3, JAK-1, TFII D, TFII F, eIF-4E, and RNA polymerase II are induced by HIV-1 gp120 PubMed
    Tat tat The interaction of Tip110 with HIV-1 Tat leads to a higher efficiency of elongation for RNAPII complexes formed on the LTR promoter PubMed
    tat Expression of both Tip110 and Tat enhances phosphorylation of RNAPII at both serine 2 and serine 5, which account for Tip110 function in transcription activation PubMed
    tat The interaction of Tip110 with HIV-1 Tat and the RNAPII C-terminal domain leads to the recruitment of increased CDK9/CycT1 to the transcription complex PubMed
    tat HIV-1 Tat complexes with RNA polymerase II and cellular transcription factors as part of the HIV-1 transcription preinitiation and elongation complexes and stimulates RNA polymerase II processivity by inducing the phosphorylation of its C-terminal Domain PubMed
    tat A small molecule compound C3 inhibits HIV-1 replication by suppressing HIV-1 Tat-mediated HIV-1 LTR-driven gene expression and phosphorylation of RNAPII through inhibition of Tat binding to CycT1 PubMed
    tat JQ1, a small molecule inhibitor of Brd4, directly dissociates Brd4 from HIV-1 promoter and promotes subsequently HIV-1 Tat binding to HIV-1 promoter, resulting in increased phosphorylation of RNA polymerase II and viral transcription PubMed
    tat HIV-1 Tat 41/44 peptide TAALS from the core domain of Tat inhibits Tat-mediated HIV-1 gene expression and replication by binding the Cdk2/Cyclin E complex and inhibiting the phosphorylation of serine 5 of RNAPII PubMed
    Vpr vpr HIV-1 Vpr interacts with basal transcription complexes such as P-TEFb, TFIIH, TFIID (TBP) and TFIIB which activate RNA polymerase II gene transcription PubMed

    Go to the HIV-1, Human Interaction Database

    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 GOA

    Function Evidence Code Pubs
    contributes_to DNA-directed 5'-3' RNA polymerase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in maintenance of transcriptional fidelity during transcription elongation by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in transcription initiation at RNA polymerase II promoter IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in transcription-coupled nucleotide-excision repair IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of RNA polymerase II, core complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of RNA polymerase II, core complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    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 II subunit RPB9
    Names
    DNA-directed RNA polymerase II 14.5 kDa polypeptide
    DNA-directed RNA polymerase II subunit I
    RNA polymerase II 14.5 kDa subunit
    RNA polymerase II subunit B9
    RPB14.5
    polymerase (RNA) II (DNA directed) polypeptide I, 14.5kDa
    polymerase (RNA) II subunit I
    NP_006224.1

    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_006233.5 → NP_006224.1  DNA-directed RNA polymerase II subunit RPB9

      See identical proteins and their annotated locations for NP_006224.1

      Status: REVIEWED

      Source sequence(s)
      BC017112
      Consensus CDS
      CCDS12487.1
      UniProtKB/Swiss-Prot
      B2R5J2, P36954, Q6NW05
      Related
      ENSP00000221859.3, ENST00000221859.9
      Conserved Domains (2) summary
      COG1594
      Location:14 → 125
      RPB9; DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
      cd10508
      Location:74 → 124
      Zn-ribbon_RPB9; C-terminal zinc ribbon domain of RPB9 subunit of RNA polymerase II

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      36113709..36114875 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      38659527..38660693 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P36954.1 GenPept UniProtKB/Swiss-Prot:P36954

    Gene LinkOut

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