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    POLR2E RNA polymerase II, I and III subunit E [ Homo sapiens (human) ]

    Gene ID: 5434, updated on 9-Jun-2024

    Summary

    Official Symbol
    POLR2Eprovided by HGNC
    Official Full Name
    RNA polymerase II, I and III subunit Eprovided by HGNC
    Primary source
    HGNC:HGNC:9192
    See related
    Ensembl:ENSG00000099817 MIM:180664; AllianceGenome:HGNC:9192
    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
    RPB5; XAP4; RPABC1; hRPB25; hsRPB5
    Summary
    This gene encodes the fifth largest subunit of RNA polymerase II, the polymerase responsible for synthesizing messenger RNA in eukaryotes. This subunit is shared by the other two DNA-directed RNA polymerases and is present in two-fold molar excess over the other polymerase subunits. An interaction between this subunit and a hepatitis virus transactivating protein has been demonstrated, suggesting that interaction between transcriptional activators and the polymerase can occur through this subunit. A pseudogene is located on chromosome 11. Three transcript variants encoding two different isoforms have been found for this gene. [provided by RefSeq, Oct 2015]
    Expression
    Ubiquitous expression in fat (RPKM 46.7), kidney (RPKM 21.6) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See POLR2E in Genome Data Viewer
    Location:
    19p13.3
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (1086574..1095375, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (1051240..1060040, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (1086573..1095374, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9652 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:1028384-1028559 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:1038259-1038760 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:1038761-1039260 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:1041153-1041950 Neighboring gene calponin 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9654 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9655 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:1051115-1051279 Neighboring gene MPRA-validated peak3219 silencer Neighboring gene ATP binding cassette subfamily A member 7 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:1056183-1056682 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:1061566-1062329 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:1063170-1064022 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9656 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:1066609-1067115 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9658 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9659 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13580 Neighboring gene Rho GTPase activating protein 45 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9660 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9661 Neighboring gene Sharpr-MPRA regulatory region 10458 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13581 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9662 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:1081390-1082265 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_50734 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:1085889-1086388 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13582 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:1094025-1094560 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13583 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13584 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13585 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:1100293-1100430 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:1101543-1102077 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13586 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13587 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13588 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9664 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9665 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:1106419-1107295 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:1110839-1111758 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:1111759-1112678 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:1112679-1113598 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:1116907-1117420 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:1117421-1117933 Neighboring gene glutathione peroxidase 4 Neighboring gene strawberry notch homolog 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:1122338-1122841 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:1131030-1131694 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:1133023-1133686 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:1133705-1134206 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:1134207-1134706 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:1147791-1148629 Neighboring gene uncharacterized LOC102723798

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA-directed 5'-3' RNA polymerase activity TAS
    Traceable Author Statement
    more info
    PubMed 
    contributes_to RNA polymerase I activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    contributes_to RNA polymerase II activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    contributes_to RNA polymerase III activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in protein stabilization NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in tRNA transcription by RNA polymerase III IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in transcription 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 elongation by RNA polymerase I IBA
    Inferred from Biological aspect of Ancestor
    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 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 
    part_of RNA polymerase III complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of RNA polymerase III complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of RPAP3/R2TP/prefoldin-like complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    located_in cytosol TAS
    Traceable Author Statement
    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

    Preferred Names
    DNA-directed RNA polymerases I, II, and III subunit RPABC1
    Names
    DNA directed RNA polymerase II 23 kda polypeptide
    DNA-directed RNA polymerase II 23 kDa polypeptide
    DNA-directed RNA polymerase II subunit E
    DNA-directed RNA polymerase subunit RPABC1
    RNA polymerase II subunit E
    RNA polymerases I, II, and III subunit ABC1
    RPB5 homolog
    polymerase (RNA) II (DNA directed) polypeptide E, 25kDa
    polymerase (RNA) II subunit E
    NP_001303252.1
    NP_001303253.1
    NP_002686.3
    XP_011526372.1
    XP_016882372.1
    XP_054177215.1
    XP_054177216.1

    NCBI Reference Sequences (RefSeq)

    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_001316323.2NP_001303252.1  DNA-directed RNA polymerases I, II, and III subunit RPABC1 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate 5' exon compared to variant 1. This difference causes translation initiation at a downstream AUG and results in an isoform (b) with a shorter N-terminus compared to isoform a. Variants 2 and 3 both encode the same isoform (b).
      Source sequence(s)
      AC004151, DC351659, DC414435
      UniProtKB/TrEMBL
      A0A087WWX0, B4DJ89
      Related
      ENSP00000480562.1, ENST00000585838.2
      Conserved Domains (1) summary
      PTZ00061
      Location:1116
      PTZ00061; DNA-directed RNA polymerase; Provisional
    2. NM_001316324.2NP_001303253.1  DNA-directed RNA polymerases I, II, and III subunit RPABC1 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an alternate 5' exon and contains another alternate 5' exon compared to variant 1. These differences cause translation initiation at a downstream AUG and result in an isoform (b) with a shorter N-terminus compared to isoform a. Variants 2 and 3 both encode the same isoform (b).
      Source sequence(s)
      AC004151, AK295975, DC414435
      UniProtKB/TrEMBL
      A0A087WWX0, B4DJ89
      Conserved Domains (1) summary
      PTZ00061
      Location:1116
      PTZ00061; DNA-directed RNA polymerase; Provisional
    3. NM_002695.5NP_002686.3  DNA-directed RNA polymerases I, II, and III subunit RPABC1 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a).
      Source sequence(s)
      AC004151
      Consensus CDS
      CCDS12056.1
      UniProtKB/Swiss-Prot
      B2R6L4, D6W5Y1, O43380, P19388, Q6PIH5, Q9BT06
      UniProtKB/TrEMBL
      A0A087WVZ9, E5KT65
      Related
      ENSP00000478303.1, ENST00000615234.5
      Conserved Domains (1) summary
      PLN03111
      Location:1209
      PLN03111; DNA-directed RNA polymerase II subunit family protein; Provisional

    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
      1086574..1095375 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017026883.3XP_016882372.1  DNA-directed RNA polymerases I, II, and III subunit RPABC1 isoform X2

      UniProtKB/TrEMBL
      A0A087WWX0
    2. XM_011528070.4XP_011526372.1  DNA-directed RNA polymerases I, II, and III subunit RPABC1 isoform X1

      UniProtKB/TrEMBL
      A0A087WVZ9
      Conserved Domains (3) summary
      PLN03111
      Location:1210
      PLN03111; DNA-directed RNA polymerase II subunit family protein; Provisional
      pfam01191
      Location:138210
      RNA_pol_Rpb5_C; RNA polymerase Rpb5, C-terminal domain
      pfam03871
      Location:492
      RNA_pol_Rpb5_N; RNA polymerase Rpb5, N-terminal domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      1051240..1060040 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054321241.1XP_054177216.1  DNA-directed RNA polymerases I, II, and III subunit RPABC1 isoform X2

      UniProtKB/TrEMBL
      A0A087WWX0
    2. XM_054321240.1XP_054177215.1  DNA-directed RNA polymerases I, II, and III subunit RPABC1 isoform X1

      UniProtKB/TrEMBL
      A0A087WVZ9