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smarcd3a SWI/SNF related BAF chromatin remodeling complex subunit D3a [ Danio rerio (zebrafish) ]

Gene ID: 564652, updated on 2-Nov-2024

Summary

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Official Symbol
smarcd3aprovided by ZNC
Official Full Name
SWI/SNF related BAF chromatin remodeling complex subunit D3aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-070912-491
See related
Ensembl:ENSDARG00000038786 AllianceGenome:ZFIN:ZDB-GENE-070912-491
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
Also known as
si:dkey-270k22.5
Summary
Predicted to enable transcription coregulator activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be part of SWI/SNF complex. Predicted to be active in nucleus. Orthologous to human SMARCD3 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
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Genomic context

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See smarcd3a in Genome Data Viewer
Location:
chromosome: 2
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (32515538..32558795, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (32532487..32575606, complement)

Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene Fas apoptotic inhibitory molecule 2a Neighboring gene ATP-binding cassette, sub-family F (GCN20), member 2a Neighboring gene transmembrane and ubiquitin-like domain containing 1 Neighboring gene Fas-activated serine/threonine kinase

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. Smarcd3 regulates the timing of zebrafish myogenesis onset. Ochi H, et al. J Biol Chem, 2008 Feb 8. PMID 18056260
  2. 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
  3. A Toolbox for Efficient Proximity-Dependent Biotinylation in Zebrafish Embryos. Rosenthal SM, et al. Mol Cell Proteomics, 2021. PMID 34332124, Free PMC Article
  4. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Huang HT, et al. Nat Cell Biol, 2013 Dec. PMID 24240475, Free PMC Article
  5. Hematopoietic gene expression profile in zebrafish kidney marrow. Song HD, et al. Proc Natl Acad Sci U S A, 2004 Nov 16. PMID 15520368, Free PMC Article

See all (9) 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

Function Evidence Code Pubs
enables transcription coregulator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
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 3
Names
SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3a

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_007113.7 Reference GRCz11 Primary Assembly

    Range
    32515538..32558795 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068214198.1 → XP_068070299.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3 isoform X7

    Related
    ENSDARP00000122275.1, ENSDART00000140026.3

  2. XM_005163520.5 → XP_005163577.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3 isoform X5

    UniProtKB/TrEMBL
    A0A8M2BAN7, E9QC50
    Related
    ENSDARP00000114118.1, ENSDART00000137531.3
    Conserved Domains (2) summary
    COG5531
    Location:171 → 368
    Rsc6; Chromatin remodeling complex protein RSC6, contains SWIB domain [Chromatin structure and dynamics]
    pfam02201
    Location:254 → 325
    SWIB; SWIB/MDM2 domain

  3. XM_005163517.5 → XP_005163574.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3 isoform X2

    UniProtKB/TrEMBL
    A0A8M2BAW1
    Conserved Domains (2) summary
    COG5531
    Location:201 → 398
    Rsc6; Chromatin remodeling complex protein RSC6, contains SWIB domain [Chromatin structure and dynamics]
    pfam02201
    Location:284 → 355
    SWIB; SWIB/MDM2 domain

  4. XM_005163521.5 → XP_005163578.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3 isoform X6

    UniProtKB/TrEMBL
    A0A8M2BAR7
    Conserved Domains (2) summary
    COG5531
    Location:149 → 359
    Rsc6; Chromatin remodeling complex protein RSC6, contains SWIB domain [Chromatin structure and dynamics]
    pfam02201
    Location:245 → 316
    SWIB; SWIB/MDM2 domain

  5. XM_005163518.5 → XP_005163575.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3 isoform X3

    UniProtKB/TrEMBL
    A0A8M2BAN6
    Conserved Domains (2) summary
    COG5531
    Location:179 → 389
    Rsc6; Chromatin remodeling complex protein RSC6, contains SWIB domain [Chromatin structure and dynamics]
    pfam02201
    Location:275 → 346
    SWIB; SWIB/MDM2 domain

  6. XM_005163519.5 → XP_005163576.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3 isoform X4

    UniProtKB/TrEMBL
    A0A8M2BB18
    Conserved Domains (2) summary
    COG5531
    Location:171 → 381
    Rsc6; Chromatin remodeling complex protein RSC6, contains SWIB domain [Chromatin structure and dynamics]
    pfam02201
    Location:267 → 338
    SWIB; SWIB/MDM2 domain

  7. XM_005163516.5 → XP_005163573.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3 isoform X1

    UniProtKB/TrEMBL
    A0A8M2BAQ8
    Conserved Domains (2) summary
    COG5531
    Location:201 → 411
    Rsc6; Chromatin remodeling complex protein RSC6, contains SWIB domain [Chromatin structure and dynamics]
    pfam02201
    Location:297 → 368
    SWIB; SWIB/MDM2 domain
Nucleotide Protein Strain
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