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    RPAP1 RNA polymerase II associated protein 1 [ Homo sapiens (human) ]

    Gene ID: 26015, updated on 3-Apr-2024

    Summary

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    Official Symbol
    RPAP1provided by HGNC
    Official Full Name
    RNA polymerase II associated protein 1provided by HGNC
    Primary source
    HGNC:HGNC:24567
    See related
    Ensembl:ENSG00000103932 MIM:611475; AllianceGenome:HGNC:24567
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Summary
    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]
    Expression
    Ubiquitous expression in testis (RPKM 6.0), ovary (RPKM 4.6) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See RPAP1 in Genome Data Viewer
    Location:
    15q15.1
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (41517176..41544257, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (39323327..39350423, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (41809374..41836455, complement)

    Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:41785475-41785975 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6359 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6360 Neighboring gene inositol-trisphosphate 3-kinase A Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6361 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:41804857-41805604 Neighboring gene leukocyte receptor tyrosine kinase Neighboring gene MPRA-validated peak2307 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:41835695-41836276 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:41844728-41844829 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:41850829-41851330 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6365 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:41851897-41852538 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:41854571-41855258 Neighboring gene elongin C pseudogene 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:41856635-41857321 Neighboring gene TYRO3 protein tyrosine kinase Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:41860135-41860642 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:41860643-41861148 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:41861657-41862163

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. RNA polymerase II bypasses 8-oxoguanine in the presence of transcription elongation factor TFIIS. Kuraoka I, et al. DNA Repair (Amst), 2007 Jun 1. PMID 17374514
    2. Gpn2 and Rba50 Directly Participate in the Assembly of the Rpb3 Subcomplex in the Biogenesis of RNA Polymerase II. Zeng F, et al. Mol Cell Biol, 2018 Jul 1. PMID 29661922, Free PMC Article
    3. RPAP1, a novel human RNA polymerase II-associated protein affinity purified with recombinant wild-type and mutated polymerase subunits. Jeronimo C, et al. Mol Cell Biol, 2004 Aug. PMID 15282305, Free PMC Article
    4. Npa3 interacts with Gpn3 and assembly factor Rba50 for RNA polymerase II biogenesis. Liu X, et al. FASEB J, 2020 Nov. PMID 32985767
    5. Mechanistic insights into COVID-19 by global analysis of the SARS-CoV-2 3CL(pro) substrate degradome. Pablos I, et al. Cell Rep, 2021 Oct 26. PMID 34672947, Free PMC Article

    See all (49) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
      Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
    2. SII is important for preventing cellular death due to oxidative DNA damage, assisting RNAPII to bypass 8-oxoG
      Title: RNA polymerase II bypasses 8-oxoguanine in the presence of transcription elongation factor TFIIS.
    3. Data report the purification of RNA polymerase II-associated protein 1 (RPAP1), a 153-kDa polypeptide of unknown function.
      Title: RPAP1, a novel human RNA polymerase II-associated protein affinity purified with recombinant wild-type and mutated polymerase subunits.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC858, FLJ12732, KIAA1403, DKFZp727M111

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotidyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of DNA-directed RNA polymerase complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    RNA polymerase II-associated protein 1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_015540.4 → NP_056355.2  RNA polymerase II-associated protein 1

      See identical proteins and their annotated locations for NP_056355.2

      Status: REVIEWED

      Source sequence(s)
      AC016134
      Consensus CDS
      CCDS10079.1
      UniProtKB/Swiss-Prot
      Q9BWH6, Q9H9I2, Q9NSQ5, Q9P2E4, Q9UFS7
      UniProtKB/TrEMBL
      A8K2F9
      Related
      ENSP00000306123.4, ENST00000304330.9
      Conserved Domains (2) summary
      pfam08620
      Location:356 → 421
      RPAP1_C; RPAP1-like, C-terminal
      pfam08621
      Location:226 → 270
      RPAP1_N; RPAP1-like, N-terminal

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000015.10 Reference GRCh38.p14 Primary Assembly

      Range
      41517176..41544257 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047432374.1 → XP_047288330.1  RNA polymerase II-associated protein 1 isoform X2

    2. XM_047432375.1 → XP_047288331.1  RNA polymerase II-associated protein 1 isoform X2

    3. XM_005254297.2 → XP_005254354.1  RNA polymerase II-associated protein 1 isoform X1

      See identical proteins and their annotated locations for XP_005254354.1

      UniProtKB/Swiss-Prot
      Q9BWH6, Q9H9I2, Q9NSQ5, Q9P2E4, Q9UFS7
      UniProtKB/TrEMBL
      A8K2F9
      Conserved Domains (2) summary
      pfam08620
      Location:356 → 421
      RPAP1_C; RPAP1-like, C-terminal
      pfam08621
      Location:226 → 270
      RPAP1_N; RPAP1-like, N-terminal

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060939.1 Alternate T2T-CHM13v2.0

      Range
      39323327..39350423 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054377712.1 → XP_054233687.1  RNA polymerase II-associated protein 1 isoform X2

    2. XM_054377710.1 → XP_054233685.1  RNA polymerase II-associated protein 1 isoform X1

    3. XM_054377711.1 → XP_054233686.1  RNA polymerase II-associated protein 1 isoform X2

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9BWH6.3 GenPept UniProtKB/Swiss-Prot:Q9BWH6

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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