U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    smarcd1 SWI/SNF related BAF chromatin remodeling complex subunit D1 [ Danio rerio (zebrafish) ]

    Gene ID: 323115, updated on 4-Jan-2025

    Summary

    Go to the top of the page Help
    Official Symbol
    smarcd1provided by ZNC
    Official Full Name
    SWI/SNF related BAF chromatin remodeling complex subunit D1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-1835
    See related
    Ensembl:ENSDARG00000019004 AllianceGenome:ZFIN:ZDB-GENE-030131-1835
    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
    wu:fa10h07; wu:fb82d01; wu:fi45f10
    Summary
    Predicted to enable transcription coregulator activity. Acts upstream of or within hemopoiesis; somite development; and spinal cord development. Predicted to be part of SWI/SNF complex. Predicted to be active in nucleus. Is expressed in ventricular zone. Human ortholog(s) of this gene implicated in Coffin-Siris syndrome 11. Orthologous to human SMARCD1 (SWI/SNF related BAF chromatin remodeling complex subunit D1). [provided by Alliance of Genome Resources, Jan 2025]
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See smarcd1 in Genome Data Viewer
    Location:
    chromosome: 22
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (7009062..7025363, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (6979216..6995517, complement)

    Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene fibroblast growth factor receptor 1b, like Neighboring gene uncharacterized LOC100535550 Neighboring gene uncharacterized LOC137488904 Neighboring gene glycerol-3-phosphate dehydrogenase 1b Neighboring gene acid-sensing (proton-gated) ion channel 1b

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Large-scale discovery of novel genetic causes of developmental disorders. Deciphering Developmental Disorders Study. Nature, 2015 Mar 12. PMID 25533962, Free PMC Article
    2. Efficient identification of CRISPR/Cas9-induced insertions/deletions by direct germline screening in zebrafish. Brocal I, et al. BMC Genomics, 2016 Mar 24. PMID 27009152, Free PMC Article
    3. Phylogenetic and chromosomal analyses of multiple gene families syntenic with vertebrate Hox clusters. Sundström G, et al. BMC Evol Biol, 2008 Sep 19. PMID 18803835, Free PMC Article
    4. 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
    5. Knockdown screening of chromatin binding and regulatory proteins in zebrafish identified Suz12b as a regulator of tfpia and an antithrombotic drug target. Raman R, et al. Sci Rep, 2021 Jul 27. PMID 34315984, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables transcription coregulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within definitive hemopoiesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within hematopoietic progenitor cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within somite development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within spinal cord development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of SWI/SNF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1
    Names
    BAF60a
    SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_198358.1 → NP_938172.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1

      See identical proteins and their annotated locations for NP_938172.1

      Status: PROVISIONAL

      Source sequence(s)
      BC049347
      UniProtKB/TrEMBL
      B2GS37, F6NXF5, Q802C8
      Related
      ENSDARP00000009407.6, ENSDART00000003422.7
      Conserved Domains (2) summary
      smart00151
      Location:286 → 362
      SWIB; SWI complex, BAF60b domains
      COG5531
      Location:202 → 403
      Rsc6; Chromatin remodeling complex protein RSC6, contains SWIB domain [Chromatin structure and dynamics]

    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_007133.7 Reference GRCz11 Primary Assembly

      Range
      7009062..7025363 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

    Molecular Biology Databases
    Research Materials
    Tools