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Rbbp4 retinoblastoma binding protein 4, chromatin remodeling factor [ Mus musculus (house mouse) ]

Gene ID: 19646, updated on 8-Jan-2023

Summary

Official Symbol
Rbbp4provided by MGI
Official Full Name
retinoblastoma binding protein 4, chromatin remodeling factorprovided by MGI
Primary source
MGI:MGI:1194912
See related
Ensembl:ENSMUSG00000057236 AllianceGenome:MGI:1194912
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
RBAP48; mRbAp48
Summary
Enables RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in chromatin organization. Predicted to act upstream of or within DNA replication and chromatin organization. Located in nucleus. Part of ESC/E(Z) complex and NuRD complex. Is expressed in several structures, including central nervous system; early conceptus; gonad; hemolymphoid system gland; and retina nuclear layer. Orthologous to human RBBP4 (RB binding protein 4, chromatin remodeling factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 70.9), liver E14 (RPKM 42.3) and 25 other tissues See more
Orthologs
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Genomic context

See Rbbp4 in Genome Data Viewer
Location:
4; 4 D2.2
Exon count:
12
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (129200893..129229163, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (129307100..129335370, complement)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene tyrosyl-tRNA synthetase Neighboring gene expressed sequence C77080 Neighboring gene predicted gene 12976 Neighboring gene syncoilin Neighboring gene zinc finger and BTB domain containing 8 opposite strand Neighboring gene zinc finger and BTB domain containing 8a

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
contributes_to ATP-dependent activity, acting on DNA ISO
Inferred from Sequence Orthology
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables histone binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables histone binding ISO
Inferred from Sequence Orthology
more info
 
enables histone deacetylase binding ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within DNA replication IEA
Inferred from Electronic Annotation
more info
 
involved_in DNA replication-dependent chromatin assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in brain development NAS
Non-traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within cell cycle IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
 
involved_in chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in chromatin remodeling ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within chromatin remodeling TAS
Traceable Author Statement
more info
PubMed 
involved_in histone deacetylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in histone deacetylation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of DNA-templated transcription NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of cell migration NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of stem cell population maintenance NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of transforming growth factor beta receptor signaling pathway NAS
Non-traceable Author Statement
more info
PubMed 
involved_in nucleosome assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of DNA-templated transcription NAS
Non-traceable Author Statement
more info
PubMed 
involved_in positive regulation of stem cell population maintenance NAS
Non-traceable Author Statement
more info
PubMed 
involved_in regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of cell fate specification NAS
Non-traceable Author Statement
more info
PubMed 
involved_in regulation of stem cell differentiation NAS
Non-traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
part_of ATPase complex ISO
Inferred from Sequence Orthology
more info
 
part_of CAF-1 complex ISO
Inferred from Sequence Orthology
more info
 
part_of ESC/E(Z) complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of ESC/E(Z) complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of ESC/E(Z) complex ISO
Inferred from Sequence Orthology
more info
 
part_of NURF complex ISO
Inferred from Sequence Orthology
more info
 
part_of NuRD complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of NuRD complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of NuRD complex ISO
Inferred from Sequence Orthology
more info
 
part_of NuRD complex NAS
Non-traceable Author Statement
more info
PubMed 
part_of Sin3 complex NAS
Non-traceable Author Statement
more info
PubMed 
located_in chromatin ISO
Inferred from Sequence Orthology
more info
 
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
located_in chromosome, telomeric region ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
part_of histone deacetylase complex ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus NAS
Non-traceable Author Statement
more info
PubMed 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
histone-binding protein RBBP4
Names
CAF-1 p48 subunit
CAF-1 subunit C
CAF-I 48 kDa subunit
CAF-I p48
RBBP-4
chromatin assembly factor 1 subunit C
chromatin assembly factor I p48 subunit
nucleosome-remodeling factor subunit RBAP48
retinoblastoma-binding protein 4
retinoblastoma-binding protein p48

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_009030.3NP_033056.2  histone-binding protein RBBP4

    See identical proteins and their annotated locations for NP_033056.2

    Status: VALIDATED

    Source sequence(s)
    AL607123
    Consensus CDS
    CCDS18688.1
    UniProtKB/Swiss-Prot
    A2A875, Q60972
    UniProtKB/TrEMBL
    A0A6P5PNB9, A0A8C6G8Q0
    Related
    ENSMUSP00000099658.4, ENSMUST00000102598.4
    Conserved Domains (3) summary
    sd00039
    Location:128175
    7WD40; WD40 repeat [structural motif]
    pfam12265
    Location:1988
    CAF1C_H4-bd; Histone-binding protein RBBP4 or subunit C of CAF1 complex
    cl29593
    Location:122403
    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 ...

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    129200893..129229163 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)