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    smarcb1b SWI/SNF related BAF chromatin remodeling complex subunit B1b [ Danio rerio (zebrafish) ]

    Gene ID: 30731, updated on 4-Jan-2025

    Summary

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    Official Symbol
    smarcb1bprovided by ZNC
    Official Full Name
    SWI/SNF related BAF chromatin remodeling complex subunit B1bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-991008-16
    See related
    Ensembl:ENSDARG00000011594 AllianceGenome:ZFIN:ZDB-GENE-991008-16
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    fc51b01; smarcb1; wu:fc51b01
    Summary
    Predicted to enable transcription coactivator activity. Predicted to be involved in chromatin remodeling and regulation of transcription by RNA polymerase II. Predicted to be located in nuclear chromosome. Predicted to be part of brahma complex; nBAF complex; and npBAF complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in Coffin-Siris syndrome 3; meningioma; rhabdoid cancer; rhabdoid tumor predisposition syndrome 1; and schwannomatosis (multiple). Orthologous to human SMARCB1 (SWI/SNF related BAF chromatin remodeling complex subunit B1). [provided by Alliance of Genome Resources, Jan 2025]
    Orthologs
    all
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    Genomic context

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    See smarcb1b in Genome Data Viewer
    Location:
    chromosome: 21
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 21 NC_007132.7 (15601254..15618777)
    105 previous assembly GRCz10 (GCF_000002035.5) 21 NC_007132.6 (15505190..15522800)

    Chromosome 21 - NC_007132.7Genomic Context describing neighboring genes Neighboring gene si:dkey-11o15.10 Neighboring gene uncharacterized LOC137488790 Neighboring gene matrix metallopeptidase 11b Neighboring gene coiled-coil-helix-coiled-coil-helix domain containing 10

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. p53 Pathway Inactivation Drives SMARCB1-deficient p53-wildtype Epithelioid Sarcoma Onset Indicating Therapeutic Vulnerability Through MDM2 Inhibition. Oppel F, et al. Mol Cancer Ther, 2022 Nov 3. PMID 36099437
    2. Molecular characterization of the zebrafish P2X receptor subunit gene family. Kucenas S, et al. Neuroscience, 2003. PMID 14580944
    3. Somatic mutagenesis with a Sleeping Beauty transposon system leads to solid tumor formation in zebrafish. McGrail M, et al. PLoS One, 2011 Apr 21. PMID 21533036, Free PMC Article
    4. The splicing factor Prpf31 is required for hematopoietic stem and progenitor cell expansion during zebrafish embryogenesis. Lv Y, et al. J Biol Chem, 2024 Mar. PMID 38382674, Free PMC Article
    5. Zebrafish miR-1 and miR-133 shape muscle gene expression and regulate sarcomeric actin organization. Mishima Y, et al. Genes Dev, 2009 Mar 1. PMID 19240126, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC101626

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of brahma complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of nBAF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of npBAF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nuclear chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1b
    Names
    SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1b
    SWI/SNF-related matrix associated 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_131448.1 → NP_571523.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1b

      See identical proteins and their annotated locations for NP_571523.1

      Status: PROVISIONAL

      Source sequence(s)
      BC083229
      UniProtKB/TrEMBL
      A0A2R8QP61, A0A8M2B826, Q5XJR9
      Related
      ENSDARP00000116163.1, ENSDART00000145454.3
      Conserved Domains (1) summary
      pfam04855
      Location:162 → 348
      SNF5; SNF5 / SMARCB1 / INI1

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007132.7 Reference GRCz11 Primary Assembly

      Range
      15601254..15618777
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005161146.4 → XP_005161203.2  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1b isoform X1

      UniProtKB/TrEMBL
      A0A2R8QP61, A0A8M2B826
      Related
      ENSDARP00000157418.1, ENSDART00000180558.1

    RNA

    1. XR_011007954.1 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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