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Aliases for POLR2J3 Gene

Aliases for POLR2J3 Gene

  • 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
  • POLR2J2 3
  • RPB11b1 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 (Polymerase (RNA) II (DNA Directed) Polypeptide J3) is a Protein Coding gene. Among its related pathways are Epstein-Barr virus infection 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 ENSG00000270249.

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

Genomic Location for POLR2J3 Gene

Start:
102,537,918 bp from pter
End:
102,572,660 bp from pter
Size:
34,743 bases
Orientation:
Minus strand

Genomic View for POLR2J3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
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

Proteomics data for POLR2J3 Gene at MOPED

Post-translational modifications for POLR2J3 Gene

  • Ubiquitination at Lys46, Lys51, and Lys61
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for POLR2J3 Gene

Domains for POLR2J3 Gene

Gene Families for POLR2J3 Gene

HGNC:
  • POLR :RNA polymerase subunits

Protein Domains 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 :
  • Q9H1A7
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

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , miRNA , Transcription Factor Targeting 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
cytosol 3
nucleus 3
plasma membrane 2

Gene Ontology (GO) - Cellular Components for POLR2J3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0016021 integral component of membrane --
genes like me logo Genes that share ontologies with POLR2J3: view

Pathways for POLR2J3 Gene

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

Interacting Proteins 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

Transcripts for POLR2J3 Gene

mRNA/cDNA for POLR2J3 Gene

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

Unigene Clusters for POLR2J3 Gene

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

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for POLR2J3

Primer Products

  • OriGene qSTAR qPCR primer pairs in human,mouse,rat for POLR2J3
  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

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 for POLR2J3 Gene

SOURCE GeneReport for Unigene cluster for POLR2J3 Gene Hs.610255

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

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein expression 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 -- 36
  • 65 (a)
OneToMany
POLR2J2 35
  • 97.68 (n)
  • 96.52 (a)
cow
(Bos Taurus)
Mammalia POLR2J 36
  • 90 (a)
OneToMany
dog
(Canis familiaris)
Mammalia -- 36
  • 81 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 82 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 87 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 80 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii polr2j 36
  • 85 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Rpb11 36
  • 71 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea rpb-11 36
  • 60 (a)
OneToMany
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ACL005C 35
  • 58.49 (n)
  • 53.77 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPB11 35
  • 58.49 (n)
  • 52.83 (a)
RPB11 36
  • 48 (a)
OneToMany
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0C06160g 35
  • 56.92 (n)
  • 50.94 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes rpb11 35
  • 51.92 (n)
  • 48.08 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6583 36
  • 76 (a)
OneToMany
Species with no ortholog for POLR2J3:
  • 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

Selected 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 MAF
rs2595634 -- 102,571,002(+) GGGGC(A/G)CAGGG intron-variant
rs3094498 -- 102,572,817(-) GCCCT(C/G)CCGGC upstream-variant-2KB
rs9640671 -- 102,537,525(+) ttttg(C/T)cattt downstream-variant-500B
rs10248669 -- 102,572,697(+) AGACC(A/C)GTGTC upstream-variant-2KB
rs11487073 -- 102,572,565(+) CACCG(C/T)CGCCA utr-variant-5-prime

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

Variant ID Type Subtype PubMed ID
nsv428182 CNV Gain 18775914
nsv831083 CNV Loss 17160897
dgv7412n71 CNV Loss 21882294
nsv888832 CNV Loss 21882294
nsv5879 CNV Loss 18451855
nsv8192 CNV Gain 18304495
esv27624 CNV Gain+Loss 19812545
nsv888836 CNV Loss 21882294
dgv7414n71 CNV Gain+Loss 21882294
dgv7415n71 CNV Gain+Loss 21882294
dgv7416n71 CNV Gain 21882294
dgv7417n71 CNV Gain 21882294
nsv888845 CNV Gain 21882294
dgv23n31 CNV Duplication 19718026
nsv499529 CNV Loss 21111241
nsv433392 CNV Gain 18776910
nsv436086 CNV Insertion 17901297
nsv436552 CNV Deletion 17901297
dgv7418n71 CNV Gain 21882294
esv2734946 CNV Deletion 23290073
nsv888865 CNV Loss 21882294
dgv7419n71 CNV Loss 21882294
dgv7420n71 CNV Gain 21882294
esv7079 CNV Loss 19470904
nsv888868 CNV Loss 21882294
dgv7421n71 CNV Gain+Loss 21882294
nsv888872 CNV Gain+Loss 21882294
nsv469682 CNV Complex 16826518
nsv471643 CNV Gain+Loss 15918152
nsv509219 CNV Insertion 20534489
dgv7422n71 CNV Loss 21882294
dgv7423n71 CNV Loss 21882294
nsv888877 CNV Loss 21882294

Relevant External Links for POLR2J3 Gene

HapMap Linkage Disequilibrium report
POLR2J3

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

Disorders for POLR2J3 Gene

No disorders were found for POLR2J3 Gene.

No data available for UniProtKB/Swiss-Prot 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
  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
  3. The thymocyte-specific MAR binding protein, SATB1, interacts in vitro with a novel variant of DNA-directed RNA polymerase II, subunit 11. (PMID: 12036295) Durrin L.K. … Krontiris T.G. (Genomics 2002) 3
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3
  5. Toward a complete human genome sequence. (PMID: 9847074) Sulston J.E. … Waterston R. (Genome Res. 1998) 3

Products for POLR2J3 Gene

Sources for POLR2J3 Gene

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