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    Rbbp5 RB binding protein 5, histone lysine methyltransferase complex subunit [ Rattus norvegicus (Norway rat) ]

    Gene ID: 304794, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Rbbp5provided by RGD
    Official Full Name
    RB binding protein 5, histone lysine methyltransferase complex subunitprovided by RGD
    Primary source
    RGD:1305532
    See related
    EnsemblRapid:ENSRNOG00000021289 AllianceGenome:RGD:1305532
    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
    Summary
    Predicted to enable histone binding activity and transcription cis-regulatory region binding activity. Predicted to be involved in response to estrogen and transcription initiation-coupled chromatin remodeling. Predicted to act upstream of or within DNA damage response. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of MLL1 complex; MLL3/4 complex; and Set1C/COMPASS complex. Orthologous to human RBBP5 (RB binding protein 5, histone lysine methyltransferase complex subunit). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 131.5), Spleen (RPKM 103.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rbbp5 in Genome Data Viewer
    Location:
    13q13
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (46464389..46494244)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (43912254..43939107)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (49250301..49277152)

    Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene transmembrane and coiled-coil domain family 2 Neighboring gene dual serine/threonine and tyrosine protein kinase Neighboring gene U6 spliceosomal RNA Neighboring gene transmembrane protein 81 Neighboring gene contactin 2 Neighboring gene neurofascin

    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. Persistent changes in gene expression induced by estrogen and progesterone in the rat mammary gland. Ginger MR, et al. Mol Endocrinol, 2001 Nov. PMID 11682629
    2. Identification of the MLL2 complex as a coactivator for estrogen receptor alpha. Mo R, et al. J Biol Chem, 2006 Jun 9. PMID 16603732
    3. On the mechanism of multiple lysine methylation by the human mixed lineage leukemia protein-1 (MLL1) core complex. Patel A, et al. J Biol Chem, 2009 Sep 4. PMID 19556245, Free PMC Article
    4. Leukemia proto-oncoprotein MLL forms a SET1-like histone methyltransferase complex with menin to regulate Hox gene expression. Yokoyama A, et al. Mol Cell Biol, 2004 Jul. PMID 15199122, Free PMC Article
    5. Identification and characterization of the human Set1B histone H3-Lys4 methyltransferase complex. Lee JH, et al. J Biol Chem, 2007 May 4. PMID 17355966

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription cis-regulatory region binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA damage response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in response to estrogen ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription initiation-coupled chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of MLL1 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of MLL1/2 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of MLL3/4 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of Set1C/COMPASS complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of Set1C/COMPASS complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of histone methyltransferase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    retinoblastoma-binding protein 5

    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_001107174.2 → NP_001100644.1  retinoblastoma-binding protein 5 isoform 1

      See identical proteins and their annotated locations for NP_001100644.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      A6IC52, D3ZC01
      Related
      ENSRNOP00000031945.2, ENSRNOT00000036110.4
      Conserved Domains (3) summary
      PTZ00441
      Location:340 → 498
      PTZ00441; sporozoite surface protein 2 (SSP2); Provisional
      sd00039
      Location:29 → 64
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:30 → 322
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    2. NM_001429997.1 → NP_001416926.1  retinoblastoma-binding protein 5 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013

    3. NM_001429998.1 → NP_001416927.1  retinoblastoma-binding protein 5 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013

    4. NM_001429999.1 → NP_001416928.1  retinoblastoma-binding protein 5 isoform 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013

    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_086031.1 Reference GRCr8

      Range
      46464389..46494244
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006249775.5 → XP_006249837.1  retinoblastoma-binding protein 5 isoform X1

      Conserved Domains (2) summary
      sd00039
      Location:29 → 64
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:30 → 322
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    2. XM_039090699.2 → XP_038946627.1  retinoblastoma-binding protein 5 isoform X4

      Conserved Domains (2) summary
      COG2319
      Location:38 → 321
      WD40; WD40 repeat [General function prediction only]
      sd00039
      Location:29 → 64
      7WD40; WD40 repeat [structural motif]

    3. XM_017598792.3 → XP_017454281.1  retinoblastoma-binding protein 5 isoform X2

      Conserved Domains (3) summary
      PTZ00441
      Location:301 → 459
      PTZ00441; sporozoite surface protein 2 (SSP2); Provisional
      sd00039
      Location:30 → 67
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:34 → 283
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    4. XM_063272287.1 → XP_063128357.1  retinoblastoma-binding protein 5 isoform X3

    Nucleotide Protein Strain
    Heading Accession and Version

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