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Aliases for RPAP1 Gene

Aliases for RPAP1 Gene

  • RNA Polymerase II Associated Protein 1 2 3
  • KIAA1403 4 6

External Ids for RPAP1 Gene

Previous GeneCards Identifiers for RPAP1 Gene

  • GC15M039526
  • GC15M039596
  • GC15M041809
  • GC15M018657

Summaries for RPAP1 Gene

Entrez Gene Summary for RPAP1 Gene

  • This protein forms part of the RNA polymerase II (RNAPII) enzyme complex and may recruit RNAPII to chromatin through its interaction with acetylated histones. [provided by RefSeq, Jul 2012]

GeneCards Summary for RPAP1 Gene

RPAP1 (RNA Polymerase II Associated Protein 1) is a Protein Coding gene. GO annotations related to this gene include DNA-directed RNA polymerase activity.

UniProtKB/Swiss-Prot for RPAP1 Gene

  • Forms an interface between the RNA polymerase II enzyme and chaperone/scaffolding protein, suggesting that it is required to connect RNA polymerase II to regulators of protein complex formation. Required for interaction of the RNA polymerase II complex with acetylated histone H3.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RPAP1 Gene

Genomics for RPAP1 Gene

Regulatory Elements for RPAP1 Gene

Transcription factor binding sites by QIAGEN in the RPAP1 gene promoter:

Genomic Location for RPAP1 Gene

Start:
41,517,176 bp from pter
End:
41,544,277 bp from pter
Size:
27,102 bases
Orientation:
Minus strand

Genomic View for RPAP1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RPAP1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPAP1 Gene

Proteins for RPAP1 Gene

  • Protein details for RPAP1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BWH6-RPAP1_HUMAN
    Recommended name:
    RNA polymerase II-associated protein 1
    Protein Accession:
    Q9BWH6
    Secondary Accessions:
    • Q9H9I2
    • Q9NSQ5
    • Q9P2E4
    • Q9UFS7

    Protein attributes for RPAP1 Gene

    Size:
    1393 amino acids
    Molecular mass:
    152755 Da
    Quaternary structure:
    • Part of an RNA polymerase II complex that contains POLR2A, POLR2B, POLR2C, POLR2D, POLR2E, POLR2F, POLR2G, POLR2H, POLR2I, POLR2J, POLR2K, POLR2L, RPAP1, FCP1 plus the general transcription factors TFIIB and TFIIF.
    SequenceCaution:
    • Sequence=BAA92641.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for RPAP1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RPAP1 Gene

Proteomics data for RPAP1 Gene at MOPED

Post-translational modifications for RPAP1 Gene

  • Ubiquitination at Lys537 and Lys1337
  • Modification sites at PhosphoSitePlus

Other Protein References for RPAP1 Gene

No data available for DME Specific Peptides for RPAP1 Gene

Domains for RPAP1 Gene

Protein Domains for RPAP1 Gene

Suggested Antigen Peptide Sequences for RPAP1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9BWH6

UniProtKB/Swiss-Prot:

RPAP1_HUMAN :
  • Q9BWH6
Family:
  • Belongs to the RPAP1 family.
genes like me logo Genes that share domains with RPAP1: view

No data available for Gene Families for RPAP1 Gene

Function for RPAP1 Gene

Molecular function for RPAP1 Gene

UniProtKB/Swiss-Prot Function: Forms an interface between the RNA polymerase II enzyme and chaperone/scaffolding protein, suggesting that it is required to connect RNA polymerase II to regulators of protein complex formation. Required for interaction of the RNA polymerase II complex with acetylated histone H3.

Gene Ontology (GO) - Molecular Function for RPAP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003899 DNA-directed RNA polymerase activity IEA --
GO:0005488 binding --
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with RPAP1: view

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for RPAP1 Gene

Localization for RPAP1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RPAP1 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RPAP1 Gene COMPARTMENTS Subcellular localization image for RPAP1 gene
Compartment Confidence
plasma membrane 3
nucleus 2
cytosol 1

Gene Ontology (GO) - Cellular Components for RPAP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA --
genes like me logo Genes that share ontologies with RPAP1: view

Pathways for RPAP1 Gene

SuperPathways for RPAP1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RPAP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006366 transcription from RNA polymerase II promoter IBA --
GO:0032774 RNA biosynthetic process --
genes like me logo Genes that share ontologies with RPAP1: view

No data available for Pathways by source for RPAP1 Gene

Transcripts for RPAP1 Gene

Unigene Clusters for RPAP1 Gene

RNA polymerase II associated protein 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for RPAP1 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b · 3c ^ 4 ^ 5a · 5b · 5c · 5d ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16a · 16b ^ 17a ·
SP1: - - - - - -
SP2:
SP3:
SP4: -
SP5: - - -
SP6: - - -
SP7:
SP8: -
SP9:
SP10:
SP11: - -

ExUns: 17b · 17c ^ 18 ^ 19a · 19b · 19c ^ 20 ^ 21 ^ 22 ^ 23 ^ 24a · 24b ^ 25a · 25b ^ 26 ^ 27a · 27b
SP1: - -
SP2:
SP3: -
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:

Relevant External Links for RPAP1 Gene

GeneLoc Exon Structure for
RPAP1
ECgene alternative splicing isoforms for
RPAP1

Expression for RPAP1 Gene

mRNA expression in normal human tissues for RPAP1 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for RPAP1 Gene

SOURCE GeneReport for Unigene cluster for RPAP1 Gene Hs.371045

genes like me logo Genes that share expressions with RPAP1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for RPAP1 Gene

Orthologs for RPAP1 Gene

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

Orthologs for RPAP1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RPAP1 35
  • 99.62 (n)
  • 99.43 (a)
RPAP1 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RPAP1 35
  • 85.88 (n)
  • 83.49 (a)
RPAP1 36
  • 83 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RPAP1 35
  • 86.21 (n)
  • 83.98 (a)
RPAP1 36
  • 84 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rpap1 35
  • 82.66 (n)
  • 80.24 (a)
Rpap1 16
Rpap1 36
  • 79 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RPAP1 36
  • 67 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RPAP1 36
  • 63 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rpap1 35
  • 82.48 (n)
  • 80.23 (a)
chicken
(Gallus gallus)
Aves RPAP1 35
  • 60.29 (n)
  • 56.07 (a)
RPAP1 36
  • 53 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RPAP1 36
  • 52 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rpap1 35
  • 58.21 (n)
  • 52.16 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10870 35
zebrafish
(Danio rerio)
Actinopterygii rpap1 35
  • 53.29 (n)
  • 48.82 (a)
rpap1 36
  • 46 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG32104 36
  • 26 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RBA50 36
  • 21 (a)
OneToOne
RBA50 38
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 35 (a)
OneToOne
Species with no ortholog for RPAP1:
  • 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)
  • 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)
  • 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 RPAP1 Gene

ENSEMBL:
Gene Tree for RPAP1 (if available)
TreeFam:
Gene Tree for RPAP1 (if available)

Paralogs for RPAP1 Gene

No data available for Paralogs for RPAP1 Gene

Variants for RPAP1 Gene

Sequence variations from dbSNP and Humsavar for RPAP1 Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type MAF
rs721772 -- 41,537,032(+) CACCA(A/G)CTGCA synonymous-codon, reference
rs928371 -- 41,530,527(+) TTTTG(A/T)TAATC intron-variant
rs932959 -- 41,518,241(+) CATAA(C/G)GTGTG intron-variant
rs1200344 -- 41,519,061(+) ttttc(C/G)aataa intron-variant
rs1200345 - 41,527,518(+) ATCCT(C/T)GTCCT missense, reference

Structural Variations from Database of Genomic Variants (DGV) for RPAP1 Gene

Variant ID Type Subtype PubMed ID
nsv524476 CNV Loss 19592680
dgv2362n71 CNV Loss 21882294
nsv471241 CNV Loss 18288195
nsv904112 CNV Loss 21882294

Relevant External Links for RPAP1 Gene

HapMap Linkage Disequilibrium report
RPAP1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RPAP1 Gene

Disorders for RPAP1 Gene

Relevant External Links for RPAP1

Genetic Association Database (GAD)
RPAP1
Human Genome Epidemiology (HuGE) Navigator
RPAP1
genes like me logo Genes that share disorders with RPAP1: view

No data available for UniProtKB/Swiss-Prot for RPAP1 Gene

Publications for RPAP1 Gene

  1. RPAP1, a novel human RNA polymerase II-associated protein affinity purified with recombinant wild-type and mutated polymerase subunits. (PMID: 15282305) Jeronimo C. … Coulombe B. (Mol. Cell. Biol. 2004) 3 4 23
  2. Prediction of the coding sequences of unidentified human genes. XVI. The complete sequences of 150 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10718198) Nagase T. … Ohara O. (DNA Res. 2000) 2 3 4
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  4. 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) 3 4
  5. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 48

Products for RPAP1 Gene

Sources for RPAP1 Gene

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