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    Parpbp PARP1 binding protein [ Rattus norvegicus (Norway rat) ]

    Gene ID: 100310874, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Parpbpprovided by RGD
    Official Full Name
    PARP1 binding proteinprovided by RGD
    Primary source
    RGD:2314264
    See related
    EnsemblRapid:ENSRNOG00000004682 AllianceGenome:RGD:2314264
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    AROM; PARI
    Summary
    Predicted to enable DNA binding activity. Predicted to be involved in negative regulation of double-strand break repair via homologous recombination. Predicted to be located in chromatin and nucleoplasm. Orthologous to human PARPBP (PARP1 binding protein). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 33.7), Thymus (RPKM 33.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Parpbp in Genome Data Viewer
    Location:
    7q13
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (24398897..24468330, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (22511427..22580834, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (28654707..28724412, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene insulin-like growth factor 1 Neighboring gene tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma, pseudogene 6 Neighboring gene pro-melanin-concentrating hormone Neighboring gene nucleoporin 37 Neighboring gene U6atac minor spliceosomal RNA Neighboring gene uncharacterized LOC120093767

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. The AROM gene, spliced mRNAs encoding new DNA/RNA-binding proteins are transcribed from the opposite strand of the melanin-concentrating hormone gene in mammals. Borsu L, et al. J Biol Chem, 2000 Dec 22. PMID 11006283
    2. Inhibition of homologous recombination by the PCNA-interacting protein PARI. Moldovan GL, et al. Mol Cell, 2012 Jan 13. PMID 22153967, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of double-strand break repair via homologous recombination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of double-strand break repair via homologous recombination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of double-strand break repair via homologous recombination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of double-strand break repair via homologous recombination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in chromatin ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    PCNA-interacting partner
    Names
    PARP-1 binding protein
    antisense RNA overlapping MCH gene protein

    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_001166676.2 → NP_001160148.1  PCNA-interacting partner isoform 3

      See identical proteins and their annotated locations for NP_001160148.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A6IFN2
      Related
      ENSRNOP00000060859.1, ENSRNOT00000065899.5
      Conserved Domains (1) summary
      TIGR01075
      Location:92 → 243
      uvrD; DNA helicase II

    2. NM_001401236.1 → NP_001388165.1  PCNA-interacting partner isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A0A0H2UHD2, A6IFN0, A6IFN1

    3. NM_001401237.1 → NP_001388166.1  PCNA-interacting partner isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/Swiss-Prot
      Q9EQ10
      UniProtKB/TrEMBL
      A6IFN0

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086025.1 Reference GRCr8

      Range
      24398897..24468330 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063262830.1 → XP_063118900.1  PCNA-interacting partner isoform X4

      UniProtKB/TrEMBL
      A0A0H2UHD2, A6IFN0, A6IFN1
      Related
      ENSRNOP00000006249.5, ENSRNOT00000006249.7

    2. XM_006241189.5 → XP_006241251.1  PCNA-interacting partner isoform X3

      See identical proteins and their annotated locations for XP_006241251.1

      UniProtKB/Swiss-Prot
      Q9EQ10
      UniProtKB/TrEMBL
      A6IFN0
      Conserved Domains (1) summary
      TIGR01075
      Location:173 → 324
      uvrD; DNA helicase II

    3. XM_039078223.2 → XP_038934151.1  PCNA-interacting partner isoform X2

      UniProtKB/TrEMBL
      G3V6L0
      Related
      ENSRNOP00000006174.2, ENSRNOT00000006174.5
      Conserved Domains (1) summary
      PRK10919
      Location:228 → 372
      PRK10919; ATP-dependent DNA helicase Rep; Provisional

    4. XM_039078222.2 → XP_038934150.1  PCNA-interacting partner isoform X1

      Conserved Domains (1) summary
      PRK10919
      Location:228 → 372
      PRK10919; ATP-dependent DNA helicase Rep; Provisional

    5. XM_063262831.1 → XP_063118901.1  PCNA-interacting partner isoform X5

    6. XM_063262832.1 → XP_063118902.1  PCNA-interacting partner isoform X5

    7. XM_039078224.2 → XP_038934152.1  PCNA-interacting partner isoform X6

      Conserved Domains (1) summary
      PRK10919
      Location:228 → 295
      PRK10919; ATP-dependent DNA helicase Rep; Provisional

    8. XM_063262833.1 → XP_063118903.1  PCNA-interacting partner isoform X7

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9EQ10.2 GenPept UniProtKB/Swiss-Prot:Q9EQ10

    Gene LinkOut

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