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Aliases for POLR2J3 Gene

Aliases for POLR2J3 Gene

  • RNA Polymerase II Subunit J3 2 3 5
  • Polymerase (RNA) II (DNA Directed) Polypeptide J3 2 3
  • DNA-Directed RNA Polymerase II Subunit J3 3 4
  • RNA Polymerase II Subunit B11-B2 3 4
  • RPB11b2 3 4
  • DNA-Directed RNA Polymerase II Subunit RPB11-B2 3
  • DNA-Directed RNA Polymerase II Subunit 11 3
  • Polymerase (RNA) II Subunit J3 3
  • RPB11b1 3
  • POLR2J2 3

External Ids for POLR2J3 Gene

Previous GeneCards Identifiers for POLR2J3 Gene

  • GC07M043774
  • GC07U901566
  • GC07M101993
  • GC07M101965
  • GC07M102178
  • GC07M101538

Summaries for POLR2J3 Gene

Entrez Gene Summary for POLR2J3 Gene

  • This gene is a member of the RNA polymerase II subunit 11 gene family, which includes three genes in a cluster on chromosome 7q22.1 and a pseudogene on chromosome 7p13. The founding member of this family, DNA directed RNA polymerase II polypeptide J, has been shown to encode a subunit of RNA polymerase II, the polymerase responsible for synthesizing messenger RNA in eukaryotes. This locus produces multiple, alternatively spliced transcripts that potentially express isoforms with distinct C-termini compared to DNA directed RNA polymerase II polypeptide J. Most or all variants are spliced to include additional non-coding exons at the 3' end which makes them candidates for nonsense-mediated decay (NMD). Consequently, it is not known if this locus expresses a protein or proteins in vivo. [provided by RefSeq, Jul 2008]

GeneCards Summary for POLR2J3 Gene

POLR2J3 (RNA Polymerase II Subunit J3) is a Protein Coding gene. Among its related pathways are Purine metabolism (KEGG) and Metabolism. GO annotations related to this gene include protein dimerization activity and DNA-directed RNA polymerase activity. An important paralog of this gene is POLR2J2.

UniProtKB/Swiss-Prot for POLR2J3 Gene

  • DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB11 is part of the core element with the central large cleft (By similarity).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for POLR2J3 Gene

Genomics for POLR2J3 Gene

Regulatory Elements for POLR2J3 Gene

Enhancers for POLR2J3 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
GH07F102834 1.1 Ensembl ENCODE 10.2 -263.5 -263529 3.4 TBL1XR1 JUN SIN3A RAD21 HIC1 ZNF316 ZNF366 PRDM10 FOS CREM RPL23AP95 POLR2J3 UPK3BL RASA4DP LRWD1 ARMC10 RNU6-1136P RN7SKP198
GH07F102870 1.3 FANTOM5 Ensembl ENCODE 9.8 -301.3 -301334 6.3 PKNOX1 SIN3A ELK1 FOS SP3 JUNB TBX21 PPARG SMARCA4 ETV4 LRRC17 POLR2J3 UPK3BL ARMC10 ORAI2 LRWD1 RN7SKP198
GH07F102829 0.2 ENCODE 9.7 -257.2 -257197 0.1 USF1 POLR2A POLR2J3 GC07P102835 LOC100422696
GH07F102131 1.4 FANTOM5 Ensembl ENCODE 6.2 +438.8 438756 4.2 PKNOX1 ATF1 MLX ARID4B SIN3A DMAP1 ZNF48 SLC30A9 FOS SP5 POLR2J3 POLR2J2 CUX1 SH2B2 ORAI2 ENSG00000261535 GC07P102081
GH07F102284 1.3 FANTOM5 ENCODE 1.9 +285.9 285938 5.4 ATF1 PKNOX1 ZNF133 ARID4B SIN3A GLI4 YBX1 ZNF48 ZNF2 YY1 SH2B2 CUX1 ORAI2 ENSG00000239486 POLR2J ARMC10 COL26A1 PRKRIP1 POLR2J3 ALKBH4
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around POLR2J3 on UCSC Golden Path with GeneCards custom track

Promoters for POLR2J3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001894753 260 1201 HDGF CREB3L1 SIN3A FEZF1 ZNF2 ZNF416 ZNF143 ZNF207 SP3 REST

Genomic Location for POLR2J3 Gene

Chromosome:
7
Start:
102,521,171 bp from pter
End:
102,572,660 bp from pter
Size:
51,490 bases
Orientation:
Minus strand

Genomic View for POLR2J3 Gene

Genes around POLR2J3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
POLR2J3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for POLR2J3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for POLR2J3 Gene

Proteins for POLR2J3 Gene

  • Protein details for POLR2J3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H1A7-RPB1C_HUMAN
    Recommended name:
    DNA-directed RNA polymerase II subunit RPB11-b2
    Protein Accession:
    Q9H1A7
    Secondary Accessions:
    • A6NKA1

    Protein attributes for POLR2J3 Gene

    Size:
    115 amino acids
    Molecular mass:
    13092 Da
    Quaternary structure:
    • Component of the RNA polymerase II (Pol II) complex consisting of 12 subunits.

neXtProt entry for POLR2J3 Gene

Post-translational modifications for POLR2J3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for POLR2J3 Gene

Domains & Families for POLR2J3 Gene

Gene Families for POLR2J3 Gene

Suggested Antigen Peptide Sequences for POLR2J3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9H1A7

UniProtKB/Swiss-Prot:

RPB1C_HUMAN :
  • Belongs to the archaeal RpoL/eukaryotic RPB11/RPC19 RNA polymerase subunit family.
Family:
  • Belongs to the archaeal RpoL/eukaryotic RPB11/RPC19 RNA polymerase subunit family.
genes like me logo Genes that share domains with POLR2J3: view

Function for POLR2J3 Gene

Molecular function for POLR2J3 Gene

UniProtKB/Swiss-Prot Function:
DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB11 is part of the core element with the central large cleft (By similarity).

Gene Ontology (GO) - Molecular Function for POLR2J3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003899 DNA-directed RNA polymerase activity IEA --
GO:0046983 protein dimerization activity IEA --
genes like me logo Genes that share ontologies with POLR2J3: view
genes like me logo Genes that share phenotypes with POLR2J3: view

Animal Model Products

miRNA for POLR2J3 Gene

miRTarBase miRNAs that target POLR2J3

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 POLR2J3 Gene

Localization for POLR2J3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for POLR2J3 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for POLR2J3 Gene COMPARTMENTS Subcellular localization image for POLR2J3 gene
Compartment Confidence
nucleus 4
cytosol 3
plasma membrane 2

Gene Ontology (GO) - Cellular Components for POLR2J3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with POLR2J3: view

Pathways & Interactions for POLR2J3 Gene

genes like me logo Genes that share pathways with POLR2J3: view

Pathways by source for POLR2J3 Gene

Gene Ontology (GO) - Biological Process for POLR2J3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with POLR2J3: view

No data available for SIGNOR curated interactions for POLR2J3 Gene

Transcripts for POLR2J3 Gene

mRNA/cDNA for POLR2J3 Gene

(4) REFSEQ mRNAs :
(10) Additional mRNA sequences :
(21) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for POLR2J3 Gene

Polymerase (RNA) II (DNA directed) polypeptide J3:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for POLR2J3 Gene

No ASD Table

Relevant External Links for POLR2J3 Gene

GeneLoc Exon Structure for
POLR2J3
ECgene alternative splicing isoforms for
POLR2J3

Expression for POLR2J3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for POLR2J3 Gene

NURSA nuclear receptor signaling pathways regulating expression of POLR2J3 Gene:

POLR2J3

SOURCE GeneReport for Unigene cluster for POLR2J3 Gene:

Hs.610255
genes like me logo Genes that share expression patterns with POLR2J3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for POLR2J3 Gene

Orthologs for POLR2J3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for POLR2J3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia POLR2J2 34
  • 97.68 (n)
-- 35
  • 65 (a)
OneToMany
cow
(Bos Taurus)
Mammalia POLR2J 35
  • 90 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 87 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 82 (a)
OneToMany
dog
(Canis familiaris)
Mammalia -- 35
  • 81 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 80 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii polr2j 35
  • 85 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Rpb11 35
  • 71 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea rpb-11 35
  • 60 (a)
OneToMany
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ACL005C 34
  • 58.49 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPB11 34 35
  • 58.49 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0C06160g 34
  • 56.92 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6583 35
  • 76 (a)
OneToMany
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes rpb11 34
  • 51.92 (n)
Species where no ortholog for POLR2J3 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • 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)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for POLR2J3 Gene

ENSEMBL:
Gene Tree for POLR2J3 (if available)
TreeFam:
Gene Tree for POLR2J3 (if available)

Paralogs for POLR2J3 Gene

Paralogs for POLR2J3 Gene

(9) SIMAP similar genes for POLR2J3 Gene using alignment to 6 proteins:

Pseudogenes.org Pseudogenes for POLR2J3 Gene

genes like me logo Genes that share paralogs with POLR2J3: view

Variants for POLR2J3 Gene

Sequence variations from dbSNP and Humsavar for POLR2J3 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs10248669 -- 102,572,697(+) AGACC(A/C)GTGTC upstream-variant-2KB
rs10259412 -- 102,550,215(+) cacca(C/T)gttgg intron-variant, upstream-variant-2KB
rs10266347 -- 102,564,415(+) CTCAC(A/C)CCCTC intron-variant, utr-variant-3-prime
rs1054292 -- 102,563,080(-) AAATA(C/G)CAGTA intron-variant, utr-variant-3-prime
rs1063548 -- 102,538,297(-) ttact(A/T)ttttt utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for POLR2J3 Gene

Variant ID Type Subtype PubMed ID
dgv11541n54 CNV loss 21841781
dgv11542n54 CNV loss 21841781
dgv11543n54 CNV loss 21841781
dgv11544n54 CNV loss 21841781
dgv11545n54 CNV loss 21841781
dgv11546n54 CNV loss 21841781
dgv11547n54 CNV loss 21841781
dgv11548n54 CNV loss 21841781
dgv1944e212 CNV loss 25503493
dgv23n31 CNV gain 19718026
dgv3894e59 CNV duplication 20981092
dgv3898e59 CNV duplication 20981092
dgv3899e59 CNV duplication 20981092
dgv3900e59 CNV duplication 20981092
dgv3901e59 CNV duplication 20981092
dgv6538n100 CNV gain 25217958
esv2734946 CNV deletion 23290073
esv27624 CNV gain+loss 19812545
esv3327844 CNV duplication 20981092
esv3335589 CNV duplication 20981092
esv3335836 CNV duplication 20981092
esv3394091 CNV duplication 20981092
esv3400561 CNV duplication 20981092
esv3417205 CNV duplication 20981092
esv3891168 CNV gain+loss 25118596
esv3891169 CNV gain+loss 25118596
esv7079 CNV loss 19470904
nsv1077497 CNV duplication 25765185
nsv1077498 CNV duplication 25765185
nsv1110493 CNV duplication 24896259
nsv1139905 CNV duplication 24896259
nsv1149208 CNV duplication 26484159
nsv1149718 CNV duplication 26484159
nsv1150342 CNV duplication 26484159
nsv1152853 CNV duplication 26484159
nsv428182 CNV gain 18775914
nsv433392 CNV gain 18776910
nsv436086 CNV insertion 17901297
nsv436552 CNV deletion 17901297
nsv469682 CNV gain+loss 16826518
nsv471643 CNV gain+loss 15918152
nsv499529 CNV loss 21111241
nsv509219 CNV insertion 20534489
nsv5879 CNV deletion 18451855
nsv608005 CNV gain 21841781
nsv8192 CNV gain 18304495
nsv831083 CNV loss 17160897
nsv949920 CNV duplication 24416366
nsv967349 CNV duplication 23825009
nsv970562 CNV duplication 23825009
nsv970921 CNV duplication 23825009
nsv981562 CNV duplication 23825009
nsv981563 CNV duplication 23825009
nsv981678 CNV duplication 23825009

Variation tolerance for POLR2J3 Gene

Gene Damage Index Score: 2.85; 48.13% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for POLR2J3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
POLR2J3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for POLR2J3 Gene

Disorders for POLR2J3 Gene

Relevant External Links for POLR2J3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
POLR2J3

No disorders were found for POLR2J3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for POLR2J3 Gene

Publications for POLR2J3 Gene

  1. [New genes on human chromosome 7: bioinformatic analysis of a gene cluster from the POLR2J family]. (PMID: 15586814) ShpakovskiA- D.G. … ShpakovskiA- G.V. (Bioorg. Khim. 2004) 2 3 64
  2. A human RNA polymerase II subunit is encoded by a recently generated multigene family. (PMID: 11747469) Grandemange S. … Vigneron M. (BMC Mol. Biol. 2001) 3 4 64
  3. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 3 64
  4. Human PMS2 gene family: origin, molecular evolution, and biological implications. (PMID: 16913423) Shpakovskii D.G. … Shpakovskii G.V. (Dokl. Biochem. Biophys. 2006) 3 64
  5. Distinct regions of RPB11 are required for heterodimerization with RPB3 in human and yeast RNA polymerase II. (PMID: 15987790) Benga W.J. … Vigneron M. (Nucleic Acids Res. 2005) 3 64

Products for POLR2J3 Gene

Sources for POLR2J3 Gene

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