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POLR3E RNA polymerase III subunit E [ Homo sapiens (human) ]

Gene ID: 55718, updated on 14-Nov-2024

Summary

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Official Symbol
POLR3Eprovided by HGNC
Official Full Name
RNA polymerase III subunit Eprovided by HGNC
Primary source
HGNC:HGNC:30347
See related
Ensembl:ENSG00000058600 MIM:617815; AllianceGenome:HGNC:30347
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
C37; SIN; RPC5
Summary
Predicted to be involved in tRNA transcription by RNA polymerase III. Located in nucleoplasm. Part of RNA polymerase III complex. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in prostate (RPKM 6.2), thyroid (RPKM 6.1) and 25 other tissues See more
Orthologs
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Genomic context

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See POLR3E in Genome Data Viewer
Location:
16p12.2
Exon count:
22
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (22297409..22335096)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (21882112..21919803, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (22308730..22346417)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7264 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7265 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:22221261-22221761 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_43156 Neighboring gene GATA motif-containing MPRA enhancer 198 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:22229709-22230208 Neighboring gene eukaryotic elongation factor 2 kinase Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:22237029-22237652 Neighboring gene Sharpr-MPRA regulatory region 4253 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:22308474-22309018 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10570 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7267 Neighboring gene Sharpr-MPRA regulatory region 3906 Neighboring gene tRNA-Leu (anticodon AAG) 2-4 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:22333033-22333580 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:22333581-22334130 Neighboring gene uncharacterized LOC124903664 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:22358198-22358698 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10571 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7268 Neighboring gene cerebellar degeneration related protein 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7269 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10572 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10573 Neighboring gene CDR2 divergent transcript

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 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. A mutation in POLR3E impairs antiviral immune response and RNA polymerase III. Ramanathan A, et al. Proc Natl Acad Sci U S A, 2020 Sep 8. PMID 32843346, Free PMC Article
  2. Mutations in RNA Polymerase III genes and defective DNA sensing in adults with varicella-zoster virus CNS infection. Carter-Timofte ME, et al. Genes Immun, 2019 Mar. PMID 29728610
  3. SIN, a novel Drosophila protein that associates with the RNA binding protein sex-lethal. Dong Z, et al. Gene, 1999 Sep 17. PMID 10521666
  4. FACT facilitates chromatin transcription by RNA polymerases I and III. Birch JL, et al. EMBO J, 2009 Apr 8. PMID 19214185, Free PMC Article
  5. Structural insights into RNA polymerase III-mediated transcription termination through trapping poly-deoxythymidine. Hou H, et al. Nat Commun, 2021 Oct 21. PMID 34675218, Free PMC Article

See all (42) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. A mutation in POLR3E impairs antiviral immune response and RNA polymerase III.
    Title: A mutation in POLR3E impairs antiviral immune response and RNA polymerase III.
  2. Mutations in the coding region of POLR3E cause impaired expression of antiviral cytokines and susceptibility to varicella-zoster virus CNS infection.
    Title: Mutations in RNA Polymerase III genes and defective DNA sensing in adults with varicella-zoster virus CNS infection.
  3. Data describe the purification and identification of RNA polymerase III subunits RPC2 and RPC5.
    Title: Characterization of human RNA polymerase III identifies orthologues for Saccharomyces cerevisiae RNA polymerase III subunits.
Submit: New GeneRIF Correction

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)

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Tat tat HIV-1 Tat upregulates the transcription by RNA polymerase III of co-transfected or endogenous cellular Alu-repeated sequences by activating transcription factor TFIIIC 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

Process Evidence Code Pubs
involved_in defense response to virus IEA
Inferred from Electronic Annotation
more info
  
involved_in innate immune response IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
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 
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
  

General protein information

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Preferred Names
DNA-directed RNA polymerase III subunit RPC5
Names
DNA-directed RNA polymerase III 80 kDa polypeptide
RNA polymerase III 80 kDa subunit RPC5
RNA polymerase III subunit C5
polymerase (RNA) III (DNA directed) polypeptide E (80kD)
polymerase (RNA) III subunit E

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_001258033.2 → NP_001244962.1  DNA-directed RNA polymerase III subunit RPC5 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame acceptor splice site in the 3' coding region compared to variant 1. The resulting isoform (2) is shorter, missing an internal protein segment, compared to isoform 1.
    Source sequence(s)
    AA282721, AC092338, AK001371, AK026645, AK222671, AK300735, AW205673
    Consensus CDS
    CCDS58432.1
    UniProtKB/TrEMBL
    Q53GZ2
    Related
    ENSP00000456967.1, ENST00000564209.5
    Conserved Domains (1) summary
    pfam04801
    Location:5 → 432
    Sin_N; Sin-like protein conserved region

  2. NM_001258034.2 → NP_001244963.1  DNA-directed RNA polymerase III subunit RPC5 isoform 4

    See identical proteins and their annotated locations for NP_001244963.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks an exon and uses an alternate acceptor splice site in the 5' region compared to variant 1, However, it maintains the reading frame, and encodes an isoform (4) missing an internal protein segment compared to isoform 1.
    Source sequence(s)
    AA282721, AC092338, AK001371, AK222671, AK296813, AW205673, DB047155
    Consensus CDS
    CCDS58434.1
    UniProtKB/TrEMBL
    Q53GZ2
    Related
    ENSP00000399254.2, ENST00000418581.6
    Conserved Domains (1) summary
    pfam04801
    Location:5 → 396
    Sin_N; Sin-like protein conserved region

  3. NM_001258035.2 → NP_001244964.1  DNA-directed RNA polymerase III subunit RPC5 isoform 3

    See identical proteins and their annotated locations for NP_001244964.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an exon in the 5' region compared to variant 1, which results in translation initiation from an in-frame downstream AUG, and an isoform (3) with a shorter N-terminus compared to isoform 1.
    Source sequence(s)
    AA282721, AC092338, AK001371, AK023231, AK222671, AW205673, DB047155
    Consensus CDS
    CCDS73845.1
    UniProtKB/TrEMBL
    A0A0C4DH01, Q53GZ2
    Related
    ENSP00000484648.1, ENST00000615879.4
    Conserved Domains (1) summary
    pfam04801
    Location:1 → 396
    Sin_N; Sin-like protein conserved region

  4. NM_001258036.2 → NP_001244965.1  DNA-directed RNA polymerase III subunit RPC5 isoform 5

    See identical proteins and their annotated locations for NP_001244965.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks an exon in the 3' coding region compared to variant 1. The resulting isoform (5) is shorter, missing an internal protein segment, compared to isoform 1.
    Source sequence(s)
    AA282721, AC092338, AK001371, AK026645, AK222671, AW205673
    Consensus CDS
    CCDS58433.1
    UniProtKB/TrEMBL
    Q53GZ2
    Related
    ENSP00000352140.4, ENST00000359210.8
    Conserved Domains (1) summary
    pfam04801
    Location:5 → 432
    Sin_N; Sin-like protein conserved region

  5. NM_018119.4 → NP_060589.1  DNA-directed RNA polymerase III subunit RPC5 isoform 1

    See identical proteins and their annotated locations for NP_060589.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AA282721, AC092338, AK001371, AK026645, AK222671, AW205673
    Consensus CDS
    CCDS10605.1
    UniProtKB/Swiss-Prot
    B4DL24, B4DUP6, H3BT11, Q9BWF7, Q9H8W8, Q9H907, Q9NVU0, Q9P276
    UniProtKB/TrEMBL
    Q53GZ2
    Related
    ENSP00000299853.5, ENST00000299853.10
    Conserved Domains (1) summary
    pfam04801
    Location:5 → 432
    Sin_N; Sin-like protein conserved region

RNA

  1. NR_047581.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) uses an alternate acceptor splice site at an internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most translational start codon (with a strong Kozak signal), as used in variant 1, renders this transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AA282721, AC092338, AK001371, AK026645, AK222671, AK293300, AW205673

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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    22297409..22335096
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011545892.3 → XP_011544194.1  DNA-directed RNA polymerase III subunit RPC5 isoform X1

    UniProtKB/TrEMBL
    Q53GZ2
    Conserved Domains (1) summary
    pfam04801
    Location:5 → 431
    Sin_N; Sin-like protein conserved region

  2. XM_011545893.4 → XP_011544195.1  DNA-directed RNA polymerase III subunit RPC5 isoform X2

    UniProtKB/TrEMBL
    Q53GZ2
    Related
    ENST00000564061.5
    Conserved Domains (1) summary
    pfam04801
    Location:5 → 432
    Sin_N; Sin-like protein conserved region

  3. XM_047434362.1 → XP_047290318.1  DNA-directed RNA polymerase III subunit RPC5 isoform X3

    UniProtKB/Swiss-Prot
    B4DL24, B4DUP6, H3BT11, Q9BWF7, Q9H8W8, Q9H907, Q9NVU0, Q9P276

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_017852933.1 Reference GRCh38.p14 PATCHES

    Range
    769934..807621 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054332150.1 → XP_054188125.1  DNA-directed RNA polymerase III subunit RPC5 isoform X1

  2. XM_054332151.1 → XP_054188126.1  DNA-directed RNA polymerase III subunit RPC5 isoform X2

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    21882112..21919803 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054313464.1 → XP_054169439.1  DNA-directed RNA polymerase III subunit RPC5 isoform X1

  2. XM_054313465.1 → XP_054169440.1  DNA-directed RNA polymerase III subunit RPC5 isoform X2

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9NVU0.1 GenPept UniProtKB/Swiss-Prot:Q9NVU0

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