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    Rbbp8 RB binding protein 8, endonuclease [ Rattus norvegicus (Norway rat) ]

    Gene ID: 291787, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Rbbp8provided by RGD
    Official Full Name
    RB binding protein 8, endonucleaseprovided by RGD
    Primary source
    RGD:1308872
    See related
    EnsemblRapid:ENSRNOG00000012899 AllianceGenome:RGD:1308872
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RIM; CtIP; SAE2; RBBP-8; RGD1308872
    Summary
    Predicted to enable several functions, including identical protein binding activity; single-stranded DNA endodeoxyribonuclease activity; and transcription corepressor activity. Involved in response to estradiol. Predicted to be located in nucleoplasm. Predicted to be part of BRCA1-C complex and transcription repressor complex. Predicted to be active in site of double-strand break. Human ortholog(s) of this gene implicated in Seckel syndrome 2. Orthologous to human RBBP8 (RB binding protein 8, endonuclease). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 94.0), Lung (RPKM 81.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rbbp8 in Genome Data Viewer
    Location:
    18p13
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (3198188..3263643)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (2922985..2988851)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (3134630..3227702)

    Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene U6 spliceosomal RNA Neighboring gene uncharacterized LOC102555022 Neighboring gene U6 snRNA-associated Sm-like protein LSm3 Neighboring gene uncharacterized LOC134482975 Neighboring gene solute carrier family 25 member 19, pseudogene 1 Neighboring gene Cdk5 and Abl enzyme substrate 1

    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 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. HDAC turnover, CtIP acetylation and dysregulated DNA damage signaling in colon cancer cells treated with sulforaphane and related dietary isothiocyanates. Rajendran P, et al. Epigenetics, 2013 Jun. PMID 23770684, Free PMC Article
    2. Expressional regulation of neuronal and cancer-related genes by estrogen in adult female rats. Rho JY, et al. Endocr Res, 2004 May. PMID 15473135
    3. Prognosis value of RBBP8 expression in plasma cell myeloma. Zhang W, et al. Cancer Gene Ther, 2020 Feb. PMID 30622325, Free PMC Article
    4. Human CtIP mediates cell cycle control of DNA end resection and double strand break repair. Huertas P, et al. J Biol Chem, 2009 Apr 3. PMID 19202191, Free PMC Article
    5. CtIP tetramer assembly is required for DNA-end resection and repair. Davies OR, et al. Nat Struct Mol Biol, 2015 Feb. PMID 25558984, Free PMC Article

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    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
    		  
    enables RNA polymerase II-specific DNA-binding transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables damaged DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables damaged DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables single-stranded DNA endodeoxyribonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription corepressor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA double-strand break processing involved in repair via single-strand annealing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in DNA double-strand break processing involved in repair via single-strand annealing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA strand resection involved in replication fork processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within G1/S transition of mitotic cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within blastocyst hatching ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in double-strand break repair via homologous recombination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in double-strand break repair via homologous recombination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in meiotic cell cycle IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in response to estradiol IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of BRCA1-C complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in site of double-strand break ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription repressor complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    DNA endonuclease RBBP8
    Names
    ctBP-interacting protein
    retinoblastoma binding protein 8
    sporulation in the absence of SPO11 protein 2 homolog

    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_001134417.1 → NP_001127889.1  DNA endonuclease RBBP8

      See identical proteins and their annotated locations for NP_001127889.1

      Status: PROVISIONAL

      Source sequence(s)
      BC162012
      UniProtKB/Swiss-Prot
      B1WC58
      UniProtKB/TrEMBL
      A0A0G2JVQ4
      Related
      ENSRNOP00000069577.2, ENSRNOT00000078615.3
      Conserved Domains (2) summary
      pfam08573
      Location:793 → 853
      SAE2; DNA repair protein endonuclease SAE2/CtIP C-terminus
      pfam10482
      Location:20 → 138
      CtIP_N; tumor-suppressor protein CtIP N-terminal domain

    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_086036.1 Reference GRCr8

      Range
      3198188..3263643
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039096753.2 → XP_038952681.1  DNA endonuclease RBBP8 isoform X4

      UniProtKB/TrEMBL
      A0A0G2JVQ4
      Conserved Domains (2) summary
      pfam08573
      Location:789 → 849
      SAE2; DNA repair protein endonuclease SAE2/CtIP C-terminus
      pfam10482
      Location:33 → 134
      CtIP_N; tumor-suppressor protein CtIP N-terminal domain

    2. XM_063277268.1 → XP_063133338.1  DNA endonuclease RBBP8 isoform X5

    3. XM_039096747.2 → XP_038952675.1  DNA endonuclease RBBP8 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JVQ4
      Related
      ENSRNOP00000081826.1, ENSRNOT00000111657.2
      Conserved Domains (2) summary
      pfam08573
      Location:827 → 887
      SAE2; DNA repair protein endonuclease SAE2/CtIP C-terminus
      pfam10482
      Location:54 → 172
      CtIP_N; tumor-suppressor protein CtIP N-terminal domain

    4. XM_039096748.2 → XP_038952676.1  DNA endonuclease RBBP8 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JVQ4
      Conserved Domains (2) summary
      pfam08573
      Location:826 → 886
      SAE2; DNA repair protein endonuclease SAE2/CtIP C-terminus
      pfam10482
      Location:54 → 172
      CtIP_N; tumor-suppressor protein CtIP N-terminal domain

    5. XM_039096752.2 → XP_038952680.1  DNA endonuclease RBBP8 isoform X3

      UniProtKB/TrEMBL
      A0A0G2JVQ4
      Conserved Domains (2) summary
      pfam08573
      Location:792 → 852
      SAE2; DNA repair protein endonuclease SAE2/CtIP C-terminus
      pfam10482
      Location:54 → 172
      CtIP_N; tumor-suppressor protein CtIP N-terminal domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    B1WC58.1 GenPept UniProtKB/Swiss-Prot:B1WC58

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