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    Rybp RING1 and YY1 binding protein [ Mus musculus (house mouse) ]

    Gene ID: 56353, updated on 7-May-2024

    Summary

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    Official Symbol
    Rybpprovided by MGI
    Official Full Name
    RING1 and YY1 binding proteinprovided by MGI
    Primary source
    MGI:MGI:1929059
    See related
    Ensembl:ENSMUSG00000072872 AllianceGenome:MGI:1929059
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    DEDAF; YEAF1; 2410018J24Rik
    Summary
    Enables DNA binding activity and transcription corepressor activity. Acts upstream of or within negative regulation of transcription by RNA polymerase II. Located in nucleoplasm. Is expressed in several structures, including brain; early embryo; extraembryonic component; genitourinary system; and nose. Orthologous to human RYBP (RING1 and YY1 binding protein). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in placenta adult (RPKM 21.3), CNS E18 (RPKM 18.2) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Rybp in Genome Data Viewer
    Location:
    6 D3; 6 46.62 cM
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (100205526..100264319, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (100228565..100287358, complement)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 53300 Neighboring gene predicted gene, 33554 Neighboring gene predicted gene, 38867 Neighboring gene STARR-seq mESC enhancer starr_16853 Neighboring gene RNA binding motif protein 17 pseudogene Neighboring gene STARR-seq mESC enhancer starr_16856 Neighboring gene STARR-positive B cell enhancer mm9_chr6:100307038-100307339 Neighboring gene STARR-seq mESC enhancer starr_16858 Neighboring gene STARR-seq mESC enhancer starr_16863 Neighboring gene predicted gene, 38868 Neighboring gene predicted gene, 23234

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. RYBP is important for cardiac progenitor cell development and sarcomere formation. Henry S, et al. PLoS One, 2020. PMID 32673370, Free PMC Article
    2. Rybp orchestrates spermatogenesis via regulating meiosis and sperm motility in mice. Tian Q, et al. Cell Cycle, 2020 Jun. PMID 32324084, Free PMC Article
    3. Ring 1 and YY1 Binding Protein Expressed in Murine Spermatocytes but Dispensable for Spermatogenesis. He Z, et al. Genes (Basel), 2020 Jan 11. PMID 31940753, Free PMC Article
    4. Lack of Rybp in Mouse Embryonic Stem Cells Impairs Cardiac Differentiation. Ujhelly O, et al. Stem Cells Dev, 2015 Sep 15. PMID 26110923
    5. A novel target of microRNA-29, Ring1 and YY1-binding protein (Rybp), negatively regulates skeletal myogenesis. Zhou L, et al. J Biol Chem, 2012 Jul 20. PMID 22661705, Free PMC Article

    See all (63) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Functional dissection of PRC1 subunits RYBP and YAF2 during neural differentiation of embryonic stem cells.
      Title: Functional dissection of PRC1 subunits RYBP and YAF2 during neural differentiation of embryonic stem cells.
    2. USP7 represses lineage differentiation genes in mouse embryonic stem cells by both catalytic and noncatalytic activities.
      Title: USP7 represses lineage differentiation genes in mouse embryonic stem cells by both catalytic and noncatalytic activities.
    3. Polycomb protein RYBP activates transcription factor Plagl1 during in vitro cardiac differentiation of mouse embryonic stem cells.
      Title: Polycomb protein RYBP activates transcription factor Plagl1 during in vitro cardiac differentiation of mouse embryonic stem cells.
    4. RYBP regulates Pax6 during in vitro neural differentiation of mouse embryonic stem cells.
      Title: RYBP regulates Pax6 during in vitro neural differentiation of mouse embryonic stem cells.
    5. RYBP modulates embryonic neurogenesis involving the Notch signaling pathway in a PRC1-independent pattern.
      Title: RYBP modulates embryonic neurogenesis involving the Notch signaling pathway in a PRC1-independent pattern.
    6. Rybp orchestrates spermatogenesis via regulating meiosis and sperm motility in mice.
      Title: Rybp orchestrates spermatogenesis via regulating meiosis and sperm motility in mice.
    7. Ring 1 and YY1 Binding Protein Expressed in Murine Spermatocytes but Dispensable for Spermatogenesis.
      Title: Ring 1 and YY1 Binding Protein Expressed in Murine Spermatocytes but Dispensable for Spermatogenesis.
    8. RYBP is important for cardiac progenitor cell development and sarcomere formation.
      Title: RYBP is important for cardiac progenitor cell development and sarcomere formation.
    9. The results suggest that histone H1-dependent chromatin compaction plays a critical role in the stable propagation of H2AK119ub1 by RYBP/YAF2-PRC1 during cell division.
      Title: RYBP/YAF2-PRC1 complexes and histone H1-dependent chromatin compaction mediate propagation of H2AK119ub1 during cell division.
    10. Study reveals a complex pattern of gene regulation by SCL, ETO2 and RYBP. Genome-wide analyses shows locus-specific binding of ETO2 and RYBP on SCL's 778 activated and repressed genes.
      Title: SCL/TAL1 cooperates with Polycomb RYBP-PRC1 to suppress alternative lineages in blood-fated cells.
    Submit: New GeneRIF Correction See all GeneRIFs (22)

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (3)  1 citation

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC62213

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables transcription coregulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transcription corepressor activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of proteasomal ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of PcG protein complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    RING1 and YY1-binding protein
    Names
    DED-associated factor
    Ring1 interactor Rybp
    death effector domain-associated factor

    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_019743.3 → NP_062717.2  RING1 and YY1-binding protein

      See identical proteins and their annotated locations for NP_062717.2

      Status: PROVISIONAL

      Source sequence(s)
      AC158655
      Consensus CDS
      CCDS39579.1
      UniProtKB/Swiss-Prot
      B2RRB6, Q8CCI5, Q9WVK2
      Related
      ENSMUSP00000098677.3, ENSMUST00000101118.4
      Conserved Domains (3) summary
      sd00029
      Location:25 → 44
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00641
      Location:22 → 45
      zf-RanBP; Zn-finger in Ran binding protein and others
      pfam17219
      Location:145 → 176
      YAF2_RYBP; Yaf2/RYBP C-terminal binding motif

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000072.7 Reference GRCm39 C57BL/6J

      Range
      100205526..100264319 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8CCI5.1 GenPept UniProtKB/Swiss-Prot:Q8CCI5

    Gene LinkOut

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

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