Free for academic non-profit institutions. Other users need a Commercial license

Aliases for POLR2J Gene

Aliases for POLR2J Gene

  • RNA Polymerase II Subunit J 2 3 5
  • DNA-Directed RNA Polymerase II Subunit J-1 3 4
  • RNA Polymerase II 13.3 KDa Subunit 3 4
  • RNA Polymerase II Subunit B11-A 3 4
  • POLR2J1 3 4
  • RPB11A 3 4
  • Polymerase (RNA) II (DNA Directed) Polypeptide J (13.3kD) 2
  • Polymerase (RNA) II (DNA Directed) Polypeptide J, 13.3kDa 3
  • DNA-Directed RNA Polymerase II Subunit RPB11-A 3
  • Polymerase (RNA) II Subunit J 3
  • RPB11m 3
  • HRPB14 3
  • RPB11 3

External Ids for POLR2J Gene

Previous GeneCards Identifiers for POLR2J Gene

  • GC07M100597
  • GC07M101660
  • GC07M101674
  • GC07M101707
  • GC07M101900
  • GC07M102113
  • GC07M096703

Summaries for POLR2J Gene

Entrez Gene Summary for POLR2J Gene

  • 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]

GeneCards Summary for POLR2J Gene

POLR2J (RNA Polymerase II Subunit J) is a Protein Coding gene. Diseases associated with POLR2J include Hiv-1. Among its related pathways are Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 and DNA damage_Role of Brca1 and Brca2 in DNA repair. GO annotations related to this gene include protein dimerization activity and RNA polymerase II activity. An important paralog of this gene is POLR2J3.

UniProtKB/Swiss-Prot for POLR2J 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).

Gene Wiki entry for POLR2J Gene

Additional gene information for POLR2J Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for POLR2J Gene

Genomics for POLR2J Gene

Regulatory Elements for POLR2J Gene

Enhancers for POLR2J 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
GH07H102414 1.6 FANTOM5 Ensembl ENCODE dbSUPER 12.3 +62.0 62026 4 HDGF NFIB MAX BACH1 SIN3A BATF ZNF316 GATA3 POLR2A EED ORAI2 ALKBH4 LRWD1 POLR2J ENSG00000272949 PRKRIP1 LOC105375433 MIR548O
GH07H102463 1.1 ENCODE 16.1 +13.9 13946 2 HDGF PKNOX1 ARID4B SIN3A ZBTB7B YY1 ZNF766 ZNF207 ZNF143 SP3 ENSG00000272949 POLR2J ORAI2 PRKRIP1 RASA4DP ENSG00000213385 GC07P102467 PIR43748 MIR5090
GH07H102439 1.5 Ensembl ENCODE dbSUPER 11.7 +37.3 37265 4 HDGF PKNOX1 ARNT TCF12 ZNF766 GATA2 ELK1 ZNF143 FOS ATF7 PRKRIP1 ENSG00000272949 MIR548O POLR2J ENSG00000239480 PIR32382
GH07H102444 1.1 ENCODE dbSUPER 14 +33.8 33794 1 HDGF PKNOX1 RB1 ZNF366 ATF7 RUNX3 CREM IKZF2 ZEB2 ZNF592 ORAI2 ENSG00000272949 POLR2J MIR548O PRKRIP1 UPK3BL1 PIR32382 ENSG00000239480
GH07H102451 1.3 Ensembl ENCODE dbSUPER 10.6 +27.3 27312 0 HDAC1 RB1 ARID4B RAD21 THAP11 SP5 REST KAT8 ZNF592 SP1 ORAI2 POLR2J2 POLR2J ENSG00000272949 PIR32382 ENSG00000239480
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around POLR2J on UCSC Golden Path with GeneCards custom track

Promoters for POLR2J Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000216104 299 1001 HDAC1 RB1 ARID4B KLF17 SIN3A ZBTB40 ZEB1 GLIS2 ZNF143 ATF7

Genomic Location for POLR2J Gene

Chromosome:
7
Start:
102,473,100 bp from pter
End:
102,478,999 bp from pter
Size:
5,900 bases
Orientation:
Minus strand

Genomic View for POLR2J Gene

Genes around POLR2J on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
POLR2J Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for POLR2J Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for POLR2J Gene

Proteins for POLR2J Gene

  • Protein details for POLR2J Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P52435-RPB11_HUMAN
    Recommended name:
    DNA-directed RNA polymerase II subunit RPB11-a
    Protein Accession:
    P52435
    Secondary Accessions:
    • A5D6V8
    • O43375

    Protein attributes for POLR2J Gene

    Size:
    117 amino acids
    Molecular mass:
    13293 Da
    Quaternary structure:
    • Component of the RNA polymerase II (Pol II) complex consisting of 12 subunits. Interacts with AATF.

    Three dimensional structures from OCA and Proteopedia for POLR2J Gene

neXtProt entry for POLR2J Gene

Post-translational modifications for POLR2J Gene

  • Ubiquitination at Lys37
  • Modification sites at PhosphoSitePlus

Other Protein References for POLR2J Gene

No data available for DME Specific Peptides for POLR2J Gene

Domains & Families for POLR2J Gene

Gene Families for POLR2J Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for POLR2J Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P52435

UniProtKB/Swiss-Prot:

RPB11_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 POLR2J: view

Function for POLR2J Gene

Molecular function for POLR2J 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 POLR2J Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001055 contributes_to RNA polymerase II activity IBA --
GO:0003677 DNA binding IEA --
GO:0003899 DNA-directed 5-3 RNA polymerase activity TAS,IEA 8797801
GO:0005515 protein binding IPI 10783144
GO:0030275 LRR domain binding IPI 10783144
genes like me logo Genes that share ontologies with POLR2J: view
genes like me logo Genes that share phenotypes with POLR2J: view

Animal Model Products

CRISPR Products

miRNA for POLR2J Gene

miRTarBase miRNAs that target POLR2J

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for POLR2J
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for POLR2J Gene

Localization for POLR2J Gene

Subcellular locations from UniProtKB/Swiss-Prot for POLR2J 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 POLR2J gene
Compartment Confidence
nucleus 5
cytosol 2
extracellular 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for POLR2J 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
genes like me logo Genes that share ontologies with POLR2J: view

Pathways & Interactions for POLR2J Gene

SuperPathways for POLR2J Gene

SuperPathway Contained pathways
1 Formation of HIV elongation complex in the absence of HIV Tat
2 mRNA Capping
3 RNA Polymerase II Transcription Initiation And Promoter Clearance
4 HIV Life Cycle
.45
5 Transcription-Coupled Nucleotide Excision Repair (TC-NER)
genes like me logo Genes that share pathways with POLR2J: view

Gene Ontology (GO) - Biological Process for POLR2J 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,TAS --
GO:0006366 transcription from RNA polymerase II promoter TAS --
GO:0006367 transcription initiation from RNA polymerase II promoter TAS --
genes like me logo Genes that share ontologies with POLR2J: view

No data available for SIGNOR curated interactions for POLR2J Gene

Drugs & Compounds for POLR2J Gene

(4) Drugs for POLR2J Gene - From: HMDB

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

(1) Additional Compounds for POLR2J 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 POLR2J: view

Transcripts for POLR2J Gene

mRNA/cDNA for POLR2J Gene

Unigene Clusters for POLR2J Gene

Polymerase (RNA) II (DNA directed) polypeptide J, 13.3kDa:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for POLR2J
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for POLR2J Gene

No ASD Table

Relevant External Links for POLR2J Gene

GeneLoc Exon Structure for
POLR2J
ECgene alternative splicing isoforms for
POLR2J

Expression for POLR2J Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for POLR2J Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for POLR2J Gene

This gene is overexpressed in Pancreas (38.8) and Lung (27.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for POLR2J Gene



Protein tissue co-expression partners for POLR2J Gene

NURSA nuclear receptor signaling pathways regulating expression of POLR2J Gene:

POLR2J

SOURCE GeneReport for Unigene cluster for POLR2J Gene:

Hs.654952

mRNA Expression by UniProt/SwissProt for POLR2J Gene:

P52435-RPB11_HUMAN
Tissue specificity: Ubiquitously expressed. High expression was found in heart and skeletal muscle.

Evidence on tissue expression from TISSUES for POLR2J Gene

  • Nervous system(4.6)
  • Intestine(4.4)
  • Kidney(4.4)
  • Bone marrow(4.3)
  • Muscle(2.3)
  • Liver(2)
genes like me logo Genes that share expression patterns with POLR2J: view

Primer Products

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for POLR2J Gene

Orthologs for POLR2J Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for POLR2J Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia POLR2J 33 34
  • 99.15 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 97 (a)
OneToMany
cow
(Bos Taurus)
Mammalia POLR2J 33 34
  • 93.16 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 91 (a)
OneToMany
dog
(Canis familiaris)
Mammalia LOC100686835 33
  • 90.88 (n)
-- 34
  • 82 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Polr2j 33
  • 90.03 (n)
mouse
(Mus musculus)
Mammalia Polr2j 33 16 34
  • 89.74 (n)
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 91 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia polr2j 33
  • 78.92 (n)
Str.10266 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.5544 33
zebrafish
(Danio rerio)
Actinopterygii polr2j 33 34
  • 79.77 (n)
Dr.17997 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.11022 33
African malaria mosquito
(Anopheles gambiae)
Insecta RPB11_ANOGA 33
  • 71.59 (n)
fruit fly
(Drosophila melanogaster)
Insecta Rpb11 35 33 34
  • 70.14 (n)
worm
(Caenorhabditis elegans)
Secernentea W01G7.3 35
  • 70 (a)
rpb-11 34 33
  • 66.97 (n)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPB11 34
  • 46 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons NRPB11 33
  • 55.96 (n)
rice
(Oryza sativa)
Liliopsida Os07g0172500 33
  • 56.51 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6583 34
  • 81 (a)
OneToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.12102 33
Species where no ortholog for POLR2J was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for POLR2J Gene

ENSEMBL:
Gene Tree for POLR2J (if available)
TreeFam:
Gene Tree for POLR2J (if available)

Paralogs for POLR2J Gene

Paralogs for POLR2J Gene

(4) SIMAP similar genes for POLR2J Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for POLR2J Gene

genes like me logo Genes that share paralogs with POLR2J: view

Variants for POLR2J Gene

Sequence variations from dbSNP and Humsavar for POLR2J Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs1000457800 -- 102,479,049(+) TGCGC(A/G)TGCGT upstream-variant-2KB
rs1000538209 -- 102,479,203(+) GCTGA(A/G)CGGGA upstream-variant-2KB
rs1000654546 -- 102,473,124(+) GGGGG(G/T)GTCTT downstream-variant-500B, utr-variant-3-prime
rs1001361022 -- 102,473,426(+) CTTGC(A/G)AAGTC downstream-variant-500B, utr-variant-3-prime
rs1002667948 -- 102,474,266(+) CCCCA(A/G)GACCT intron-variant, reference, missense

Structural Variations from Database of Genomic Variants (DGV) for POLR2J Gene

Variant ID Type Subtype PubMed ID
dgv11541n54 CNV loss 21841781
dgv23n31 CNV gain 19718026
dgv3892e59 CNV duplication 20981092
dgv6538n100 CNV gain 25217958
esv27624 CNV gain+loss 19812545
nsv428182 CNV gain 18775914
nsv464664 CNV gain 19166990
nsv464665 CNV loss 19166990
nsv471450 CNV gain 19718026
nsv482111 CNV gain 20164927
nsv5879 CNV deletion 18451855
nsv607998 CNV gain+loss 21841781
nsv607999 CNV loss 21841781
nsv608005 CNV gain 21841781
nsv8192 CNV gain 18304495
nsv831083 CNV loss 17160897
nsv970919 CNV duplication 23825009

Variation tolerance for POLR2J Gene

Gene Damage Index Score: 0.14; 3.11% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for POLR2J Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
POLR2J

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for POLR2J Gene

Disorders for POLR2J Gene

MalaCards: The human disease database

(1) MalaCards diseases for POLR2J Gene - From: GeneCards

Disorder Aliases PubMed IDs
hiv-1
  • aids, slow progression to
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for POLR2J

Genetic Association Database (GAD)
POLR2J
Human Genome Epidemiology (HuGE) Navigator
POLR2J
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
POLR2J
genes like me logo Genes that share disorders with POLR2J: view

No data available for UniProtKB/Swiss-Prot and Genatlas for POLR2J Gene

Publications for POLR2J Gene

  1. Genetic polymorphisms in 85 DNA repair genes and bladder cancer risk. (PMID: 19237606) Michiels S … Benhamou S (Carcinogenesis 2009) 3 45 60
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  3. [New genes on human chromosome 7: bioinformatic analysis of a gene cluster from the POLR2J family]. (PMID: 15586814) Shpakovskiĭ DG … Shpakovskiĭ GV (Bioorganicheskaia khimiia 2004) 3 22 60
  4. The DNA sequence of human chromosome 7. (PMID: 12853948) Hillier LW … Wilson RK (Nature 2003) 3 4 60
  5. A human RNA polymerase II subunit is encoded by a recently generated multigene family. (PMID: 11747469) Grandemange S … Vigneron M (BMC molecular biology 2001) 4 22 60

Products for POLR2J Gene

Sources for POLR2J Gene

Content
Loading form....