U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    POLR2J RNA polymerase II subunit J [ Homo sapiens (human) ]

    Gene ID: 5439, updated on 3-Apr-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    POLR2Jprovided by HGNC
    Official Full Name
    RNA polymerase II subunit Jprovided by HGNC
    Primary source
    HGNC:HGNC:9197
    See related
    Ensembl:ENSG00000005075 MIM:604150; AllianceGenome:HGNC:9197
    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
    RPB11; RPB11A; RPB11m; hRPB14; POLR2J1
    Summary
    This gene encodes a subunit of RNA polymerase II, the polymerase responsible for synthesizing messenger RNA in eukaryotes. The product of this gene exists as a heterodimer with another polymerase subunit; together they form a core subassembly unit of the polymerase. Two similar genes are located nearby on chromosome 7q22.1 and a pseudogene is found on chromosome 7p13. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in bone marrow (RPKM 20.7), fat (RPKM 18.2) and 25 other tissues See more
    Orthologs
    mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See POLR2J in Genome Data Viewer
    Location:
    7q22.1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (102473128..102478922, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (103790727..103796555, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (102113575..102119369, complement)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:102105832-102106358 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:102106359-102106884 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26437 Neighboring gene microRNA 5090 Neighboring gene leucine rich repeats and WD repeat domain containing 1 Neighboring gene microRNA 4467 Neighboring gene RAS p21 protein activator 4B Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:102131046-102131546 Neighboring gene uncharacterized LOC124901715 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:102151767-102152268 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:102152269-102152768 Neighboring gene Sharpr-MPRA regulatory region 3260 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:102156842-102157466 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:102165421-102165922 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:102165923-102166422 Neighboring gene POLR2J3-UPK3BL2 readthrough Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:102179485-102180312 Neighboring gene uroplakin 3B like 2

    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: 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Cloning of a novel human RNA polymerase II subunit downregulated by doxorubicin: new potential mechanisms of drug related toxicity. Fanciulli M, et al. FEBS Lett, 1996 Apr 8. PMID 8797801
    2. The interacting RNA polymerase II subunits, hRPB11 and hRPB3, are coordinately expressed in adult human tissues and down-regulated by doxorubicin. Fanciulli M, et al. FEBS Lett, 1998 May 8. PMID 9607318
    3. The alpha-like RNA polymerase II core subunit 3 (RPB3) is involved in tissue-specific transcription and muscle differentiation via interaction with the myogenic factor myogenin. Corbi N, et al. FASEB J, 2002 Oct. PMID 12207009
    4. A minor isoform of the human RNA polymerase II subunit hRPB11 (POLR2J) interacts with several components of the translation initiation factor eIF3. Proshkin SA, et al. Biochemistry (Mosc), 2011 Aug. PMID 22022972
    5. [New genes on human chromosome 7: bioinformatic analysis of a gene cluster from the POLR2J family]. Shpakovskiĭ DG, et al. Bioorg Khim, 2004 Nov-Dec. PMID 15586814

    See all (137) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. POLR2J interacts with three different subunits of eIF3, eIF3a, eIF3i, and eIF3m.
      Title: A minor isoform of the human RNA polymerase II subunit hRPB11 (POLR2J) interacts with several components of the translation initiation factor eIF3.
    2. Observational study of gene-disease association, gene-gene interaction, and gene-environment interaction. (HuGE Navigator)
      Title: Genetic polymorphisms in 85 DNA repair genes and bladder cancer risk.
    3. Four independent genes(POLR2J1, POLR2J2, POLR2J3, POLR2J4) encoding various variants of the hRPB11 subunit of Homo sapiens RNA polymerase II were revealed in human chromosome 7
      Title: [New genes on human chromosome 7: bioinformatic analysis of a gene cluster from the POLR2J family].
    Submit: New GeneRIF Correction

    Phenotypes

    Go to the top of the page Help

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

    Go to the top of the page Help

    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

    Go to the top of the page Help

    Replication interactions

    Interaction Pubs
    Knockdown of polymerase (RNA) II (DNA directed) polypeptide J (POLR2J, 13.3kDa) 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

    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

    Clone Names

    • MGC71910

    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 
    enables LRR domain binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    contributes_to RNA polymerase II activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein dimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    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 
    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 nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    DNA-directed RNA polymerase II subunit RPB11-a
    Names
    DNA-directed RNA polymerase II subunit J-1
    RNA polymerase II 13.3 kDa subunit
    RNA polymerase II subunit B11-a
    polymerase (RNA) II (DNA directed) polypeptide J, 13.3kDa
    polymerase (RNA) II subunit J
    NP_001358029.1
    NP_001380848.1
    NP_006225.1
    XP_016867842.1
    XP_054214442.1

    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_001371100.1 → NP_001358029.1  DNA-directed RNA polymerase II subunit RPB11-a isoform 2

      Status: REVIEWED

      Source sequence(s)
      AC093668
      Conserved Domains (1) summary
      cd06926
      Location:17 → 75
      RNAP_II_RPB11; RPB11 subunit of Eukaryotic RNA polymerase II

    2. NM_001393919.1 → NP_001380848.1  DNA-directed RNA polymerase II subunit RPB11-a isoform 3

      Status: REVIEWED

      Source sequence(s)
      AC093668
      UniProtKB/TrEMBL
      E2QRJ6
      Conserved Domains (1) summary
      cd06926
      Location:14 → 105
      RNAP_II_RPB11; RPB11 subunit of Eukaryotic RNA polymerase II

    3. NM_006234.6 → NP_006225.1  DNA-directed RNA polymerase II subunit RPB11-a isoform 1

      See identical proteins and their annotated locations for NP_006225.1

      Status: REVIEWED

      Source sequence(s)
      BC065711, BM545237
      Consensus CDS
      CCDS5724.1
      UniProtKB/Swiss-Prot
      A5D6V8, O43375, P52435
      Related
      ENSP00000292614.5, ENST00000292614.10
      Conserved Domains (1) summary
      cd06926
      Location:14 → 105
      RNAP_II_RPB11; RPB11 subunit of Eukaryotic RNA polymerase II

    RNA

    1. NR_163857.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC093668

    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_000007.14 Reference GRCh38.p14 Primary Assembly

      Range
      102473128..102478922 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017012353.2 → XP_016867842.1  DNA-directed RNA polymerase II subunit RPB11-a isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      103790727..103796555 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054358467.1 → XP_054214442.1  DNA-directed RNA polymerase II subunit RPB11-a isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P52435.1 GenPept UniProtKB/Swiss-Prot:P52435

    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