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    smarcd2 SWI/SNF related BAF chromatin remodeling complex subunit D2 [ Danio rerio (zebrafish) ]

    Gene ID: 564317, updated on 2-Nov-2024

    Summary

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    Official Symbol
    smarcd2provided by ZNC
    Official Full Name
    SWI/SNF related BAF chromatin remodeling complex subunit D2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-080215-1
    See related
    Ensembl:ENSDARG00000088877 AllianceGenome:ZFIN:ZDB-GENE-080215-1
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Summary
    Predicted to enable transcription coregulator activity. Acts upstream of or within hematopoietic progenitor cell differentiation and neutrophil differentiation. Predicted to be part of SWI/SNF complex. Predicted to be active in nucleus. Orthologous to human SMARCD2 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
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    Genomic context

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    See smarcd2 in Genome Data Viewer
    Location:
    chromosome: 12
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 12 NC_007123.7 (10134399..10160941)
    105 previous assembly GRCz10 (GCF_000002035.5) 12 NC_007123.6 (10096450..10123104)

    Chromosome 12 - NC_007123.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137496793 Neighboring gene ataxin 7 like 3b Neighboring gene proteasome 26S subunit, ATPase 5 Neighboring gene MAGUK p55 scaffold protein 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 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. Chromatin-remodeling factor SMARCD2 regulates transcriptional networks controlling differentiation of neutrophil granulocytes. Witzel M, et al. Nat Genet, 2017 May. PMID 28369036, 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. Endocardial identity is established during early somitogenesis by Bmp signalling acting upstream of npas4l and etv2. Capon SJ, et al. Development, 2022 May 1. PMID 35531980, Free PMC Article
    4. 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
    5. An intestinal cell type in zebrafish is the nexus for the SARS-CoV-2 receptor and the Renin-Angiotensin-Aldosterone System that contributes to COVID-19 comorbidities. Postlethwait JH, et al. bioRxiv, 2020 Sep 2. PMID 32908984, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    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 hematopoietic progenitor cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within neutrophil 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
    		  
    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

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    Preferred Names
    SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2
    Names
    SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2

    NCBI Reference Sequences (RefSeq)

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    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_007123.7 Reference GRCz11 Primary Assembly

      Range
      10134399..10160941
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068224730.1 → XP_068080831.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2 isoform X1

    2. XM_687657.7 → XP_692749.2  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2 isoform X2

      UniProtKB/TrEMBL
      A0A8N7T7V7, E7EYW7
      Related
      ENSDARP00000104597.1, ENSDART00000127343.3
      Conserved Domains (3) summary
      COG5531
      Location:200 → 400
      Rsc6; Chromatin remodeling complex protein RSC6, contains SWIB domain [Chromatin structure and dynamics]
      pfam08430
      Location:1 → 99
      Forkhead_N; Forkhead N-terminal region
      pfam02201
      Location:280 → 351
      SWIB; SWIB/MDM2 domain
    Nucleotide Protein Strain
    Heading Accession and Version

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