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    smarcd3b SWI/SNF related BAF chromatin remodeling complex subunit D3b [ Danio rerio (zebrafish) ]

    Gene ID: 562140, updated on 4-Jan-2025

    Summary

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    Official Symbol
    smarcd3bprovided by ZNC
    Official Full Name
    SWI/SNF related BAF chromatin remodeling complex subunit D3bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-080509-2
    See related
    Ensembl:ENSDARG00000019969 AllianceGenome:ZFIN:ZDB-GENE-080509-2
    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
    Summary
    Acts upstream of or within cardiac muscle cell differentiation; determination of left/right symmetry; and heart morphogenesis. Is expressed in several structures, including brain; immature eye; margin; notochord; and tail bud. Orthologous to human SMARCD3 (SWI/SNF related BAF chromatin remodeling complex subunit D3). [provided by Alliance of Genome Resources, Jan 2025]
    Orthologs
    all
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    Genomic context

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    See smarcd3b in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (41436489..41490002, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (41156416..41209985, complement)

    Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene ATP-binding cassette, sub-family F (GCN20), member 2b Neighboring gene chondroitin polymerizing factor 2 Neighboring gene nuclear transcription factor, X-box binding 1 Neighboring gene plexin domain containing 2b

    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. Low-level pyrene exposure causes cardiac toxicity in zebrafish (Danio rerio) embryos. Zhang Y, et al. Aquat Toxicol, 2012 Jun 15. PMID 22446823
    2. Assessment of environmentally contaminated sediment using a contact assay with early life stage zebrafish (Danio rerio). Boulanger E, et al. Sci Total Environ, 2019 Apr 1. PMID 31096425
    3. Smarcd3b and Gata5 promote a cardiac progenitor fate in the zebrafish embryo. Lou X, et al. Development, 2011 Aug. PMID 21715426
    4. Smarcd3 regulates the timing of zebrafish myogenesis onset. Ochi H, et al. J Biol Chem, 2008 Feb 8. PMID 18056260
    5. Developmental toxicity and alteration of gene expression in zebrafish embryo exposed to 6-benzylaminopurine. Wang W, et al. Chemosphere, 2019 Oct. PMID 31176896

    See all (15) 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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    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    acts_upstream_of_or_within cardiac muscle cell differentiation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within determination of left/right symmetry IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within heart morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3b
    Names
    SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3b
    smarcd3
    smarcd3l

    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_001127306.1 → NP_001120778.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3b

      See identical proteins and their annotated locations for NP_001120778.1

      Status: PROVISIONAL

      Source sequence(s)
      EF552706
      UniProtKB/TrEMBL
      A0A8M1NGY2, B2KL77
      Related
      ENSDARP00000143064.1, ENSDART00000174087.2
      Conserved Domains (2) summary
      COG5531
      Location:172 → 369
      Rsc6; Chromatin remodeling complex protein RSC6, contains SWIB domain [Chromatin structure and dynamics]
      pfam02201
      Location:255 → 326
      SWIB; SWIB/MDM2 domain

    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_007118.7 Reference GRCz11 Primary Assembly

      Range
      41436489..41490002 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005166419.5 → XP_005166476.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3b isoform X4

      UniProtKB/TrEMBL
      A0A8M2BDZ5
      Conserved Domains (2) summary
      COG5531
      Location:150 → 347
      Rsc6; Chromatin remodeling complex protein RSC6, contains SWIB domain [Chromatin structure and dynamics]
      pfam02201
      Location:233 → 304
      SWIB; SWIB/MDM2 domain

    2. XM_021477564.2 → XP_021333239.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3b isoform X2

      UniProtKB/TrEMBL
      A0A8M9Q7X8
      Related
      ENSDARP00000015411.10, ENSDART00000006724.12
      Conserved Domains (1) summary
      pfam02201
      Location:289 → 360
      SWIB; SWIB/MDM2 domain

    3. XM_005166417.5 → XP_005166474.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3b isoform X3

      UniProtKB/TrEMBL
      A0A8M2BDT5
      Conserved Domains (2) summary
      COG5531
      Location:202 → 399
      Rsc6; Chromatin remodeling complex protein RSC6, contains SWIB domain [Chromatin structure and dynamics]
      pfam02201
      Location:285 → 356
      SWIB; SWIB/MDM2 domain

    4. XM_021477563.2 → XP_021333238.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3b isoform X1

      UniProtKB/TrEMBL
      A0A8M9Q1P6
      Conserved Domains (1) summary
      pfam02201
      Location:311 → 382
      SWIB; SWIB/MDM2 domain
    Nucleotide Protein
    Heading Accession and Version

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