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Aliases for POLR2E Gene

Aliases for POLR2E Gene

  • RNA Polymerase II Subunit E 2 3 5
  • DNA Directed RNA Polymerase II 23 Kda Polypeptide 2 3
  • DNA-Directed RNA Polymerase II 23 KDa Polypeptide 3 4
  • RNA Polymerases I, II, And III Subunit ABC1 3 4
  • DNA-Directed RNA Polymerase II Subunit E 3 4
  • RPB5 Homolog 3 4
  • XAP4 3 4
  • DNA-Directed RNA Polymerases I, II, And III Subunit RPABC1 3
  • Polymerase (RNA) II (DNA Directed) Polypeptide E (25kD) 2
  • Polymerase (RNA) II (DNA Directed) Polypeptide E, 25kDa 3
  • DNA-Directed RNA Polymerase Subunit RPABC1 3
  • Polymerase (RNA) II Subunit E 3
  • RPABC1 3
  • HRPB25 3
  • HsRPB5 3
  • RPB5 3

External Ids for POLR2E Gene

Previous GeneCards Identifiers for POLR2E Gene

  • GC19M001162
  • GC19M001027
  • GC19M001039
  • GC19M000860

Summaries for POLR2E Gene

Entrez Gene Summary for POLR2E Gene

  • 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]

GeneCards Summary for POLR2E Gene

POLR2E (RNA Polymerase II Subunit E) is a Protein Coding gene. Among its related pathways are Immune System and Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3. GO annotations related to this gene include DNA-directed RNA polymerase activity and RNA polymerase I activity.

UniProtKB/Swiss-Prot for POLR2E Gene

  • DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non-coding RNAs, and small RNAs, such as 5S rRNA and tRNAs, respectively. Pol II is the central component of the basal RNA polymerase II transcription machinery. Pols are composed of mobile elements that move relative to each other. In Pol II, POLR2E/RPB5 is part of the lower jaw surrounding the central large cleft and thought to grab the incoming DNA template. Seems to be the major component in this process (By similarity).

Gene Wiki entry for POLR2E Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for POLR2E Gene

Genomics for POLR2E Gene

Regulatory Elements for POLR2E Gene

Enhancers for POLR2E Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH19F001083 1.4 FANTOM5 Ensembl ENCODE 31.2 +8.4 8385 6.1 ZNF76 ZNF48 GLIS2 EGR1 ZNF366 SCRT2 PAF1 CBFB GATAD2B TBX21 POLR2E ABCA7 ARHGAP45 MIDN GPX4 SBNO2 HCN2 R3HDM4 ARID3A CIRBP
GH19F001093 1.1 ENCODE 17 +0.6 566 2.9 HDGF PKNOX1 CREB3L1 ARID4B SIN3A DMAP1 YY1 ZNF207 ZNF143 KLF13 POLR2E FSTL3 GPX4 PIR52456
GH19F001074 1.3 Ensembl ENCODE 12.4 +18.7 18732 4.7 HDGF PKNOX1 ARNT CREB3L1 MLX SIN3A ARID4B FEZF1 SLC30A9 ZNF766 LOC100288123 TMEM259 ABCA7 POLR2E ARHGAP45 ENSG00000267317 ADAT3 GRIN3B WDR18 PIR52456
GH19F001065 1.4 FANTOM5 ENCODE 11.3 +28.2 28235 6.0 HDGF MLX WRNIP1 ZFP64 SIN3A ARID4B DMAP1 ZNF2 ZNF143 ZNF263 ARHGAP45 ABCA7 POLR2E SBNO2 MIDN R3HDM4 CIRBP TMEM259 PIR52456
GH19F001064 0.8 ENCODE 15.2 +32.1 32091 0.6 HDGF KLF1 CDC5L HIC1 ZFHX2 POLR2A KLF7 KLF8 EGR2 SMARCA5 POLR2E ABCA7 WDR18 ARHGAP45 GC19M001049
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around POLR2E on UCSC Golden Path with GeneCards custom track

Promoters for POLR2E Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000341381 292 1401 HDGF PKNOX1 CREB3L1 ARID4B SIN3A DMAP1 YY1 ZNF766 ZNF207 ZNF143

Transcription factor binding sites by QIAGEN in the POLR2E gene promoter:

Genomic Location for POLR2E Gene

Chromosome:
19
Start:
1,086,579 bp from pter
End:
1,095,392 bp from pter
Size:
8,814 bases
Orientation:
Minus strand

Genomic View for POLR2E Gene

Genes around POLR2E on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
POLR2E Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for POLR2E Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for POLR2E Gene

Proteins for POLR2E Gene

  • Protein details for POLR2E Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P19388-RPAB1_HUMAN
    Recommended name:
    DNA-directed RNA polymerases I, II, and III subunit RPABC1
    Protein Accession:
    P19388
    Secondary Accessions:
    • B2R6L4
    • D6W5Y1
    • O43380
    • Q6PIH5
    • Q9BT06

    Protein attributes for POLR2E Gene

    Size:
    210 amino acids
    Molecular mass:
    24551 Da
    Quaternary structure:
    • Component of the RNA polymerase I (Pol I), RNA polymerase II (Pol II) and RNA polymerase III (Pol III) complexes consisting of at least 13, 12 and 17 subunits, respectively (By similarity). In RNA Pol II, this subunit is present in 2-fold molar excess over the other subunits. Interacts with URI1. Interacts with HBV protein X.

    Three dimensional structures from OCA and Proteopedia for POLR2E Gene

neXtProt entry for POLR2E Gene

Post-translational modifications for POLR2E Gene

  • Ubiquitination at Lys 115
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for POLR2E Gene

Domains & Families for POLR2E Gene

Gene Families for POLR2E Gene

Suggested Antigen Peptide Sequences for POLR2E Gene

Graphical View of Domain Structure for InterPro Entry

P19388

UniProtKB/Swiss-Prot:

RPAB1_HUMAN :
  • Belongs to the archaeal RpoH/eukaryotic RPB5 RNA polymerase subunit family.
Family:
  • Belongs to the archaeal RpoH/eukaryotic RPB5 RNA polymerase subunit family.
genes like me logo Genes that share domains with POLR2E: view

Function for POLR2E Gene

Molecular function for POLR2E Gene

GENATLAS Biochemistry:
polymerase II,RNA (DNA directed) small polypeptide E (25kDa)
UniProtKB/Swiss-Prot Function:
DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non-coding RNAs, and small RNAs, such as 5S rRNA and tRNAs, respectively. Pol II is the central component of the basal RNA polymerase II transcription machinery. Pols are composed of mobile elements that move relative to each other. In Pol II, POLR2E/RPB5 is part of the lower jaw surrounding the central large cleft and thought to grab the incoming DNA template. Seems to be the major component in this process (By similarity).

Gene Ontology (GO) - Molecular Function for POLR2E Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001054 contributes_to RNA polymerase I activity IBA --
GO:0001055 contributes_to RNA polymerase II activity IBA --
GO:0001056 contributes_to RNA polymerase III activity IBA --
GO:0003677 DNA binding IEA --
GO:0003899 DNA-directed RNA polymerase activity IEA,TAS 7828586
genes like me logo Genes that share ontologies with POLR2E: view
genes like me logo Genes that share phenotypes with POLR2E: view

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for POLR2E Gene

Localization for POLR2E Gene

Subcellular locations from UniProtKB/Swiss-Prot for POLR2E Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for POLR2E gene
Compartment Confidence
nucleus 5
cytosol 5
plasma membrane 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for POLR2E Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 9852112
GO:0005654 nucleoplasm TAS --
GO:0005665 DNA-directed RNA polymerase II, core complex IDA 9852112
GO:0005666 DNA-directed RNA polymerase III complex IBA --
GO:0005736 DNA-directed RNA polymerase I complex IBA --
genes like me logo Genes that share ontologies with POLR2E: view

Pathways & Interactions for POLR2E Gene

SuperPathways for POLR2E Gene

SuperPathway Contained pathways
1 Formation of HIV elongation complex in the absence of HIV Tat
2 Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3
3 RNA Polymerase II Transcription Initiation And Promoter Clearance
4 RNA Polymerase III Transcription Initiation
5 mRNA Capping
genes like me logo Genes that share pathways with POLR2E: view

Gene Ontology (GO) - Biological Process for POLR2E Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006283 transcription-coupled nucleotide-excision repair TAS --
GO:0006351 transcription, DNA-templated IEA --
GO:0006361 transcription initiation from RNA polymerase I promoter TAS --
GO:0006362 transcription elongation from RNA polymerase I promoter TAS --
genes like me logo Genes that share ontologies with POLR2E: view

No data available for SIGNOR curated interactions for POLR2E Gene

Drugs & Compounds for POLR2E Gene

(4) Drugs for POLR2E Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Adenosine triphosphate Approved Nutra 0
Cytidine triphosphate Experimental Pharma 0
Guanosine triphosphate Experimental Pharma 0
Uridine triphosphate Experimental Pharma 0

(1) Additional Compounds for POLR2E Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
pyrophosphate
  • (4-)Diphosphoric acid ion
  • (P2O74-)Diphosphate
  • Diphosphate
  • Diphosphoric acid
  • PPi
14000-31-8
genes like me logo Genes that share compounds with POLR2E: view

Transcripts for POLR2E Gene

Unigene Clusters for POLR2E Gene

Polymerase (RNA) II (DNA directed) polypeptide E, 25kDa:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for POLR2E Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5 ^ 6a · 6b · 6c ^ 7a · 7b · 7c ^ 8a · 8b · 8c · 8d · 8e · 8f ^ 9
SP1: -
SP2: - - - - - - -
SP3:
SP4: - -
SP5: -
SP6: -
SP7: -
SP8:

Relevant External Links for POLR2E Gene

GeneLoc Exon Structure for
POLR2E
ECgene alternative splicing isoforms for
POLR2E

Expression for POLR2E Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for POLR2E Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for POLR2E Gene

This gene is overexpressed in Peripheral blood mononuclear cells (16.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for POLR2E Gene



Protein tissue co-expression partners for POLR2E Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of POLR2E Gene:

POLR2E

SOURCE GeneReport for Unigene cluster for POLR2E Gene:

Hs.24301
genes like me logo Genes that share expression patterns with POLR2E: view

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for POLR2E Gene

Orthologs for POLR2E Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for POLR2E Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia POLR2E 34 35
  • 99.66 (n)
oppossum
(Monodelphis domestica)
Mammalia POLR2E 35
  • 98 (a)
OneToOne
cow
(Bos Taurus)
Mammalia POLR2E 34 35
  • 92.06 (n)
dog
(Canis familiaris)
Mammalia POLR2E 34 35
  • 91.75 (n)
rat
(Rattus norvegicus)
Mammalia Polr2e 34
  • 90.32 (n)
mouse
(Mus musculus)
Mammalia Polr2e 34 16 35
  • 90 (n)
chicken
(Gallus gallus)
Aves POLR2E 34 35
  • 87.62 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia polr2e 34
  • 79.84 (n)
Str.471 34
African clawed frog
(Xenopus laevis)
Amphibia MGC68604 34
zebrafish
(Danio rerio)
Actinopterygii POLR2E (2 of 2) 35
  • 92 (a)
OneToMany
polr2eb 34 35
  • 79.37 (n)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10881 34
fruit fly
(Drosophila melanogaster)
Insecta Rpb5 36 34 35
  • 77.35 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010064 34
  • 73.68 (n)
worm
(Caenorhabditis elegans)
Secernentea H27M09.2 36
  • 77 (a)
rpb-5 35
  • 77 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AER036W 34
  • 55.72 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F21098g 34
  • 50.99 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPB5 34 35 37
  • 49.75 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons NRPB5 34
  • 56.37 (n)
soybean
(Glycine max)
eudicotyledons Gma.10585 34
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.3372 34
rice
(Oryza sativa)
Liliopsida Os01g0805800 34
  • 57.82 (n)
wheat
(Triticum aestivum)
Liliopsida Ta.22111 34
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 85 (a)
OneToOne
bread mold
(Neurospora crassa)
Ascomycetes NCU05305 34
  • 52.05 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes rpb5 34
  • 48.35 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.2190 34
Species where no ortholog for POLR2E was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for POLR2E Gene

ENSEMBL:
Gene Tree for POLR2E (if available)
TreeFam:
Gene Tree for POLR2E (if available)

Paralogs for POLR2E Gene

Pseudogenes.org Pseudogenes for POLR2E Gene

genes like me logo Genes that share paralogs with POLR2E: view

No data available for Paralogs for POLR2E Gene

Variants for POLR2E Gene

Sequence variations from dbSNP and Humsavar for POLR2E Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs10405108 -- 1,088,935(+) AGGCC(A/G)AGCCC intron-variant
rs10406195 -- 1,091,000(+) GAGAG(A/C/T)GGCTC intron-variant
rs10410231 -- 1,089,242(+) CACGC(A/C)CCGCG intron-variant
rs10416031 -- 1,095,152(+) CCTTC(A/G)TCGCT intron-variant
rs10426326 -- 1,092,531(+) CCCGT(C/T)TCTAC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for POLR2E Gene

Variant ID Type Subtype PubMed ID
nsv9662 CNV gain 18304495
nsv953938 CNV deletion 24416366
nsv833704 CNV gain 17160897
nsv828366 CNV loss 20364138
nsv578215 CNV gain 21841781
nsv470103 CNV gain 18288195
nsv470102 CNV loss 18288195
nsv469845 CNV loss 16826518
nsv1160555 CNV deletion 26073780
nsv1058677 CNV loss 25217958
esv2758743 CNV gain+loss 17122850
dgv136n111 CNV deletion 26073780
dgv135n111 CNV deletion 26073780

Variation tolerance for POLR2E Gene

Residual Variation Intolerance Score: 35.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.58; 12.56% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for POLR2E Gene

Human Gene Mutation Database (HGMD)
POLR2E
SNPedia medical, phenotypic, and genealogical associations of SNPs for
POLR2E

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for POLR2E Gene

Disorders for POLR2E Gene

Relevant External Links for POLR2E

Genetic Association Database (GAD)
POLR2E
Human Genome Epidemiology (HuGE) Navigator
POLR2E
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
POLR2E

No disorders were found for POLR2E Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for POLR2E Gene

Publications for POLR2E Gene

  1. Genetic polymorphisms in 85 DNA repair genes and bladder cancer risk. (PMID: 19237606) Michiels S. … Benhamou S. (Carcinogenesis 2009) 3 46 64
  2. Association between genetic variants in VEGF, ERCC3 and occupational benzene haematotoxicity. (PMID: 19773279) Hosgood H.D. … Lan Q. (Occup Environ Med 2009) 3 46 64
  3. Mutational analysis of human RNA polymerase II subunit 5 (RPB5): the residues critical for interactions with TFIIF subunit RAP30 and hepatitis B virus X protein. (PMID: 16169872) Le T.T. … Murakami S. (J. Biochem. 2005) 3 22 64
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. The DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J. … Lucas S.M. (Nature 2004) 3 4 64

Products for POLR2E Gene

Sources for POLR2E Gene

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