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Aliases for RPAP2 Gene

Aliases for RPAP2 Gene

  • RNA Polymerase II Associated Protein 2 2 3 5
  • C1orf82 3 4
  • Putative RNA Polymerase II Subunit B1 CTD Phosphatase RPAP2 3
  • RNA Polymerase II-Associated Protein 2 4
  • Chromosome 1 Open Reading Frame 82 2
  • EC 3.1.3.16 4
  • Rtr1 3

External Ids for RPAP2 Gene

Previous HGNC Symbols for RPAP2 Gene

  • C1orf82

Previous GeneCards Identifiers for RPAP2 Gene

  • GC01P092537
  • GC01P092764
  • GC01P090884

Summaries for RPAP2 Gene

GeneCards Summary for RPAP2 Gene

RPAP2 (RNA Polymerase II Associated Protein 2) is a Protein Coding gene. Among its related pathways are Gene Expression and Formation of HIV elongation complex in the absence of HIV Tat. GO annotations related to this gene include CTD phosphatase activity.

UniProtKB/Swiss-Prot for RPAP2 Gene

  • Protein phosphatase that displays CTD phosphatase activity and regulates transcription of snRNA genes. Recognizes and binds phosphorylated Ser-7 of the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit POLR2A, and mediates dephosphorylation of Ser-5 of the CTD, thereby promoting transcription of snRNA genes.

Gene Wiki entry for RPAP2 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RPAP2 Gene

Genomics for RPAP2 Gene

Regulatory Elements for RPAP2 Gene

Enhancers for RPAP2 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
GH01F092803 1.2 FANTOM5 Ensembl ENCODE 14 +506.1 506093 3.1 PKNOX1 ATF1 ARNT CREB3L1 GTF3C2 ZNF121 GATA2 FOS NFYC NCOA1 SNORD21 SNORA66 CCDC18-AS1 RPL5 DR1 RPAP2 EVI5 GC01M092807
GH01F091649 1.4 FANTOM5 Ensembl ENCODE 4.3 -647.8 -647846 2.6 BHLHE40 MAFG USF2 NR2F2 ZNF316 MAFF RAD51 FOS FOXP2 MAFK RPAP2 HSP90B3P GC01P091700
GH01F091802 1.1 VISTA FANTOM5 Ensembl ENCODE 3.8 -493.4 -493429 5.8 HDGF PKNOX1 ATF1 ARNT WRNIP1 ZNF2 GLIS2 GATA2 JUNB NCOA1 EVI5 RPAP2 TGFBR3 GLMN GC01M091786 GC01M091783
GH01F092313 1.1 FANTOM5 Ensembl ENCODE 3.3 +17.6 17591 5.5 ATF1 ARID4B SIN3A DMAP1 ZNF2 ZNF766 GATA2 JUNB NCOA1 KAT8 FAM69A RPAP2 TGFBR3 GC01P092398
GH01F092536 1.5 FANTOM5 Ensembl ENCODE 3.1 +238.7 238706 3.1 HDGF PKNOX1 MLX YBX1 DMAP1 YY1 JUNB TBX21 PPARG KAT8 EVI5 FAM69A RPAP2 GLMN GFI1 RPL5 GC01P092533 GC01P092559
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around RPAP2 on UCSC Golden Path with GeneCards custom track

Promoters for RPAP2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000165874 -64 2600 HDGF WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 ZNF263 SP3

Genomic Location for RPAP2 Gene

Chromosome:
1
Start:
92,298,965 bp from pter
End:
92,402,056 bp from pter
Size:
103,092 bases
Orientation:
Plus strand

Genomic View for RPAP2 Gene

Genes around RPAP2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RPAP2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RPAP2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPAP2 Gene

Proteins for RPAP2 Gene

  • Protein details for RPAP2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IXW5-RPAP2_HUMAN
    Recommended name:
    Putative RNA polymerase II subunit B1 CTD phosphatase RPAP2
    Protein Accession:
    Q8IXW5
    Secondary Accessions:
    • C9JKB5
    • Q49AS7
    • Q9H8Y2

    Protein attributes for RPAP2 Gene

    Size:
    612 amino acids
    Molecular mass:
    69509 Da
    Quaternary structure:
    • Associates with the RNA polymerase II complex. Interacts with transcribing RNA polymerase II phosphorylated on Ser-7 on CTD.

    Alternative splice isoforms for RPAP2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RPAP2 Gene

Post-translational modifications for RPAP2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RPAP2 Gene

No data available for DME Specific Peptides for RPAP2 Gene

Domains & Families for RPAP2 Gene

Protein Domains for RPAP2 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for RPAP2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8IXW5

UniProtKB/Swiss-Prot:

RPAP2_HUMAN :
  • The RTR1-type zinc finger mediates interactions with RNA polymerase II complex subunits.
  • Belongs to the RPAP2 family.
  • Contains 1 RTR1-type zinc finger.
Domain:
  • The RTR1-type zinc finger mediates interactions with RNA polymerase II complex subunits.
Family:
  • Belongs to the RPAP2 family.
Similarity:
  • Contains 1 RTR1-type zinc finger.
genes like me logo Genes that share domains with RPAP2: view

No data available for Gene Families for RPAP2 Gene

Function for RPAP2 Gene

Molecular function for RPAP2 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
[a protein]-serine/threonine phosphate + H(2)O = [a protein]-serine/threonine + phosphate.
UniProtKB/Swiss-Prot Function:
Protein phosphatase that displays CTD phosphatase activity and regulates transcription of snRNA genes. Recognizes and binds phosphorylated Ser-7 of the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit POLR2A, and mediates dephosphorylation of Ser-5 of the CTD, thereby promoting transcription of snRNA genes.

Enzyme Numbers (IUBMB) for RPAP2 Gene

Gene Ontology (GO) - Molecular Function for RPAP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004722 protein serine/threonine phosphatase activity EXP 22137580
GO:0008420 CTD phosphatase activity IMP 22137580
GO:0016787 hydrolase activity IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with RPAP2: view
genes like me logo Genes that share phenotypes with RPAP2: view

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RPAP2 Gene

Localization for RPAP2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RPAP2 Gene

Cytoplasm. Nucleus. Note=Shuttles between the cytoplasm and the nucleus in a CRM1-dependent manner.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RPAP2 Gene COMPARTMENTS Subcellular localization image for RPAP2 gene
Compartment Confidence
nucleus 5
cytosol 3
golgi apparatus 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for RPAP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 22137580
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus IDA --
GO:0005737 cytoplasm IEA,IDA 22137580
GO:0016591 DNA-directed RNA polymerase II, holoenzyme IDA 22137580
genes like me logo Genes that share ontologies with RPAP2: view

Pathways & Interactions for RPAP2 Gene

genes like me logo Genes that share pathways with RPAP2: view

Pathways by source for RPAP2 Gene

2 Reactome pathways for RPAP2 Gene

Interacting Proteins for RPAP2 Gene

Selected Interacting proteins: Q8IXW5-RPAP2_HUMAN for RPAP2 Gene via IID

Gene Ontology (GO) - Biological Process for RPAP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0009301 snRNA transcription IMP 22137580
GO:0042795 snRNA transcription from RNA polymerase II promoter TAS --
GO:0070940 dephosphorylation of RNA polymerase II C-terminal domain IMP 22137580
genes like me logo Genes that share ontologies with RPAP2: view

No data available for SIGNOR curated interactions for RPAP2 Gene

Drugs & Compounds for RPAP2 Gene

(2) Drugs for RPAP2 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Phosphoric acid Approved Pharma 0
Water Approved Pharma 0
genes like me logo Genes that share compounds with RPAP2: view

Transcripts for RPAP2 Gene

Unigene Clusters for RPAP2 Gene

RNA polymerase II associated protein 2:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RPAP2 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14
SP1: -
SP2: -
SP3:
SP4:

Relevant External Links for RPAP2 Gene

GeneLoc Exon Structure for
RPAP2
ECgene alternative splicing isoforms for
RPAP2

Expression for RPAP2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for RPAP2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for RPAP2 Gene

This gene is overexpressed in Testis (25.8), CD8 Tcells (23.6), and Blymphocyte (7.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RPAP2 Gene



Protein tissue co-expression partners for RPAP2 Gene

NURSA nuclear receptor signaling pathways regulating expression of RPAP2 Gene:

RPAP2

SOURCE GeneReport for Unigene cluster for RPAP2 Gene:

Hs.444421
genes like me logo Genes that share expression patterns with RPAP2: view

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for RPAP2 Gene

Orthologs for RPAP2 Gene

This gene was present in the common ancestor of animals.

Orthologs for RPAP2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RPAP2 34 35
  • 99.56 (n)
dog
(Canis familiaris)
Mammalia RPAP2 34
  • 89.55 (n)
-- 35
  • 85 (a)
OneToMany
-- 35
  • 80 (a)
OneToMany
cow
(Bos Taurus)
Mammalia RPAP2 34 35
  • 88.45 (n)
rat
(Rattus norvegicus)
Mammalia Rpap2 34
  • 77.83 (n)
mouse
(Mus musculus)
Mammalia Rpap2 34 16 35
  • 77.65 (n)
oppossum
(Monodelphis domestica)
Mammalia RPAP2 35
  • 61 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RPAP2 35
  • 52 (a)
OneToOne
chicken
(Gallus gallus)
Aves RPAP2 34 35
  • 64.34 (n)
lizard
(Anolis carolinensis)
Reptilia RPAP2 35
  • 47 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rpap2 34
  • 58.47 (n)
Str.16031 34
zebrafish
(Danio rerio)
Actinopterygii rpap2 34 35
  • 54.36 (n)
Dr.25701 34
fruit fly
(Drosophila melanogaster)
Insecta CG34183 35
  • 50 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 35 (a)
OneToOne
Species where no ortholog for RPAP2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • 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)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for RPAP2 Gene

ENSEMBL:
Gene Tree for RPAP2 (if available)
TreeFam:
Gene Tree for RPAP2 (if available)

Paralogs for RPAP2 Gene

Pseudogenes.org Pseudogenes for RPAP2 Gene

genes like me logo Genes that share paralogs with RPAP2: view

No data available for Paralogs for RPAP2 Gene

Variants for RPAP2 Gene

Sequence variations from dbSNP and Humsavar for RPAP2 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs762515373 Pathogenic 92,297,408(+) CCTTA(-/TTCTT)TTCAT intron-variant, nc-transcript-variant, upstream-variant-2KB, reference, frameshift-variant, utr-variant-5-prime
rs10555168 -- 92,361,117(+) CACAC(-/AT)ATATA intron-variant
rs10667665 -- 92,361,854(+) TTTCT(-/CTTCT)GTGGA intron-variant
rs10700372 -- 92,322,860(+) AACAC(-/AGTG)CAGAC intron-variant
rs10706811 -- 92,310,060(+) TGAGA(-/C)CAGGA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RPAP2 Gene

Variant ID Type Subtype PubMed ID
esv2714684 CNV deletion 23290073
esv3346260 CNV insertion 20981092
nsv1133878 CNV deletion 24896259
nsv477492 CNV novel sequence insertion 20440878
nsv830592 CNV gain 17160897

Variation tolerance for RPAP2 Gene

Residual Variation Intolerance Score: 30.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.56; 44.49% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RPAP2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RPAP2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RPAP2 Gene

Disorders for RPAP2 Gene

Relevant External Links for RPAP2

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RPAP2

No disorders were found for RPAP2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RPAP2 Gene

Publications for RPAP2 Gene

  1. Systematic analysis of the protein interaction network for the human transcription machinery reveals the identity of the 7SK capping enzyme. (PMID: 17643375) Jeronimo C. … Coulombe B. (Mol. Cell 2007) 2 3 4 64
  2. The yeast regulator of transcription protein Rtr1 lacks an active site and phosphatase activity. (PMID: 22781759) Xiang K. … Tong L. (Nat Commun 2012) 2 3 64
  3. Ser7 phosphorylation of the CTD recruits the RPAP2 Ser5 phosphatase to snRNA genes. (PMID: 22137580) Egloff S. … Murphy S. (Mol. Cell 2012) 3 4 64
  4. Control of the RNA polymerase II phosphorylation state in promoter regions by CTD interaction domain-containing proteins RPRD1A and RPRD1B. (PMID: 22231121) Ni Z. … Greenblatt J.F. (Transcription 2011) 3 4 64
  5. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3 4 64

Products for RPAP2 Gene

Sources for RPAP2 Gene

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