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

Gene ID: 5439, updated on 10-Dec-2024

Summary

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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
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Genomic context

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See POLR2J in Genome Data Viewer
Location:
7q22.1
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (102473128..102478922, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (103790727..103796555, complement)
RS_2024_09 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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

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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 (138) 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

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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)

HIV-1 interactions

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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

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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

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

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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)

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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_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_2024_08

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

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