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Aliases for SMARCD3 Gene

Aliases for SMARCD3 Gene

  • SWI/SNF Related, Matrix Associated, Actin Dependent Regulator Of Chromatin, Subfamily D, Member 3 2 3
  • BAF60C 3 4 6
  • Mammalian Chromatin Remodeling Complex BRG1-Associated Factor 60C 2 3
  • 60 KDa BRG-1/Brm-Associated Factor Subunit C 3 4
  • SWI/SNF Complex 60 KDa Subunit C 2 3
  • BRG1-Associated Factor 60C 3 4
  • Swp73-Like Protein 2 3
  • SWI/SNF-Related Matrix-Associated Actin-Dependent Regulator Of Chromatin Subfamily D Member 3 3
  • 60kDa BRG-1/Brm Associated Factor Subunit C 2
  • Chromatin Remodeling Complex BAF60C Subunit 3
  • CRACD3 3
  • Rsc6p 3

External Ids for SMARCD3 Gene

Previous GeneCards Identifiers for SMARCD3 Gene

  • GC07M149182
  • GC07M150250
  • GC07M150327
  • GC07M150373
  • GC07M150566
  • GC07M150935
  • GC07M144747

Summaries for SMARCD3 Gene

Entrez Gene Summary for SMARCD3 Gene

  • The protein encoded by this gene is a member of the SWI/SNF family of proteins, whose members display helicase and ATPase activities and which are thought to regulate transcription of certain genes by altering the chromatin structure around those genes. The encoded protein is part of the large ATP-dependent chromatin remodeling complex SNF/SWI and has sequence similarity to the yeast Swp73 protein. Multiple alternatively spliced transcript variants have been found for this gene, but the biological validity of some variants has not been determined. [provided by RefSeq, Jul 2008]

GeneCards Summary for SMARCD3 Gene

SMARCD3 (SWI/SNF Related, Matrix Associated, Actin Dependent Regulator Of Chromatin, Subfamily D, Member 3) is a Protein Coding gene. Among its related pathways are L1CAM interactions and Metabolism. GO annotations related to this gene include receptor binding and transcription coactivator activity. An important paralog of this gene is SMARCD1.

UniProtKB/Swiss-Prot for SMARCD3 Gene

  • Plays a role in ATP dependent nucleosome remodeling by SMARCA4 containing complexes. Stimulates nuclear receptor mediated transcription. Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth (By similarity).

Gene Wiki entry for SMARCD3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SMARCD3 Gene

Genomics for SMARCD3 Gene

Regulatory Elements for SMARCD3 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for SMARCD3 Gene

Start:
151,238,764 bp from pter
End:
151,277,896 bp from pter
Size:
39,133 bases
Orientation:
Minus strand

Genomic View for SMARCD3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SMARCD3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SMARCD3 Gene

Proteins for SMARCD3 Gene

  • Protein details for SMARCD3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6STE5-SMRD3_HUMAN
    Recommended name:
    SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3
    Protein Accession:
    Q6STE5
    Secondary Accessions:
    • D3DX10
    • Q2YD86
    • Q75MJ2
    • Q75MR8
    • Q92926
    • Q9BUH1

    Protein attributes for SMARCD3 Gene

    Size:
    483 amino acids
    Molecular mass:
    55016 Da
    Quaternary structure:
    • Component of the BAF complex, which includes at least actin (ACTB), ARID1A, ARID1B/BAF250, SMARCA2, SMARCA4/BRG1/BAF190A, ACTL6A/BAF53, ACTL6B/BAF53B, SMARCE1/BAF57, SMARCC1/BAF155, SMARCC2/BAF170, SMARCB1/SNF5/INI1, and one or more of SMARCD1/BAF60A, SMARCD2/BAF60B, or SMARCD3/BAF60C. In muscle cells, the BAF complex also contains DPF3. Interacts with SMARCA4/BRG1/BAF190A, the catalytic subunit of the SWI/SNF related nucleosome-remodeling complexes BRG1(I) and BRG1(II). The precise distribution of the related SMARCD1, SMARCD2 and SMARCD3 proteins among these and other SWI/SNF nucleosome-remodeling complexes is not fully known. Also interacts with several nuclear receptors including PPARG/NR1C3, RXRA/NR1F1, ESR1, NR5A1, NR5A2/LRH1 and other transcriptional activators including the HLH protein SREBF1/SREBP1 and the homeobox protein PBX1. May allow recruitment of Swi/SNF containing complexes specifically to promoters where these factors are located. Component of neural progenitors-specific chromatin remodeling complex (npBAF complex) composed of at least, ARID1A/BAF250A or ARID1B/BAF250B, SMARCD1/BAF60A, SMARCD3/BAF60C, SMARCA2/BRM/BAF190B, SMARCA4/BRG1/BAF190A, SMARCB1/BAF47, SMARCC1/BAF155, SMARCE1/BAF57, SMARCC2/BAF170, PHF10/BAF45A, ACTL6A/BAF53A and actin. Component of neuron-specific chromatin remodeling complex (nBAF complex) composed of at least, ARID1A/BAF250A or ARID1B/BAF250B, SMARCD1/BAF60A, SMARCD3/BAF60C, SMARCA2/BRM/BAF190B, SMARCA4/BRG1/BAF190A, SMARCB1/BAF47, SMARCC1/BAF155, SMARCE1/BAF57, SMARCC2/BAF170, DPF1/BAF45B, DPF3/BAF45C, ACTL6B/BAF53B and actin (By similarity).
    SequenceCaution:
    • Sequence=AAC50697.1; Type=Frameshift; Positions=41, 65, 78; Evidence={ECO:0000305};

    Alternative splice isoforms for SMARCD3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SMARCD3 Gene

Proteomics data for SMARCD3 Gene at MOPED

Post-translational modifications for SMARCD3 Gene

  • Ubiquitination at Lys131
  • Modification sites at PhosphoSitePlus

Other Protein References for SMARCD3 Gene

No data available for DME Specific Peptides for SMARCD3 Gene

Domains for SMARCD3 Gene

Protein Domains for SMARCD3 Gene

Suggested Antigen Peptide Sequences for SMARCD3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q6STE5

UniProtKB/Swiss-Prot:

SMRD3_HUMAN :
  • Q6STE5
Domain:
  • Contains 1 SWIB domain.
Family:
  • Belongs to the SMARCD family.
genes like me logo Genes that share domains with SMARCD3: view

No data available for Gene Families for SMARCD3 Gene

Function for SMARCD3 Gene

Molecular function for SMARCD3 Gene

GENATLAS Biochemistry: general transcriptional activator S cerevisiae SWI/SNF related protein,matrix associated,actin-dependent regulator of chromatin,subfamily D,member 3,component of the chromatin remodeling complex,preferentially expressed in muscle and pancreas
UniProtKB/Swiss-Prot Function: Plays a role in ATP dependent nucleosome remodeling by SMARCA4 containing complexes. Stimulates nuclear receptor mediated transcription. Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth (By similarity).

Gene Ontology (GO) - Molecular Function for SMARCD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003713 transcription coactivator activity NAS 8804307
GO:0005102 receptor binding IPI 14701856
GO:0005515 protein binding IPI 14701856
GO:0008134 transcription factor binding IPI 14701856
GO:0016922 ligand-dependent nuclear receptor binding IPI 17363140
genes like me logo Genes that share ontologies with SMARCD3: view

Animal Model Products

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SMARCD3

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for SMARCD3 Gene

Localization for SMARCD3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SMARCD3 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SMARCD3 Gene COMPARTMENTS Subcellular localization image for SMARCD3 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for SMARCD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000790 nuclear chromatin IDA 17363140
GO:0005634 nucleus IDA 14701856
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IDA 17363140
GO:0016514 SWI/SNF complex NAS 14701856
genes like me logo Genes that share ontologies with SMARCD3: view

Pathways for SMARCD3 Gene

genes like me logo Genes that share pathways with SMARCD3: view

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays
    • Epigenetic Chromatin Remodeling Factors in human,mouse,rat
    • PPAR Targets in human,mouse,rat
    • Polycomb & Trithorax Complexes in human,mouse,rat

Gene Ontology (GO) - Biological Process for SMARCD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002052 positive regulation of neuroblast proliferation IDA 18816825
GO:0003007 heart morphogenesis --
GO:0003139 secondary heart field specification IEA --
GO:0003219 cardiac right ventricle formation IEA --
GO:0003407 neural retina development IEP 18816825
genes like me logo Genes that share ontologies with SMARCD3: view

Transcripts for SMARCD3 Gene

Unigene Clusters for SMARCD3 Gene

SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SMARCD3

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SMARCD3 Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12a · 12b ^ 13 ^ 14 ^ 15a · 15b ^ 16 ^ 17 ^ 18
SP1: - - - - - -
SP2: - - - - -
SP3: - - - -
SP4: - - - - - -
SP5: -
SP6: - - - -
SP7: -
SP8: -
SP9:

Relevant External Links for SMARCD3 Gene

GeneLoc Exon Structure for
SMARCD3
ECgene alternative splicing isoforms for
SMARCD3

Expression for SMARCD3 Gene

mRNA expression in normal human tissues for SMARCD3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SMARCD3 Gene

SOURCE GeneReport for Unigene cluster for SMARCD3 Gene Hs.647067

mRNA Expression by UniProt/SwissProt for SMARCD3 Gene

Q6STE5-SMRD3_HUMAN
Tissue specificity: Isoform 2 and isoform 1 are expressed in brain, heart, kidney, placenta, prostate, salivary gland, spleen, testis, thyroid, trachea and uterus. Isoform 1 is also expressed in skeletal muscle and adipose tissue
genes like me logo Genes that share expressions with SMARCD3: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for SMARCD3 Gene

Orthologs for SMARCD3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SMARCD3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SMARCD3 35
  • 99.45 (n)
  • 100 (a)
SMARCD3 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SMARCD3 35
  • 94.41 (n)
  • 99.79 (a)
SMARCD3 36
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SMARCD3 35
  • 94.89 (n)
  • 99.59 (a)
SMARCD3 36
  • 100 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Smarcd3 35
  • 93.51 (n)
  • 99.79 (a)
Smarcd3 16
Smarcd3 36
  • 100 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SMARCD3 36
  • 99 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SMARCD3 36
  • 90 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Smarcd3 35
  • 93.14 (n)
  • 99.56 (a)
chicken
(Gallus gallus)
Aves SMARCD3 35
  • 76.06 (n)
  • 86.43 (a)
SMARCD3 36
  • 85 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii smarcd3a 36
  • 80 (a)
OneToMany
smarcd3b 35
  • 78.01 (n)
  • 89.08 (a)
smarcd3b 36
  • 87 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Bap60 36
  • 56 (a)
OneToMany
Bap60 37
  • 70 (a)
worm
(Caenorhabditis elegans)
Secernentea ham-3 36
  • 52 (a)
ManyToMany
swsn-2.2 36
  • 47 (a)
ManyToMany
ZK1128.5 37
  • 51 (a)
C18E3.2 37
  • 48 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes ssr3 35
  • 46.04 (n)
  • 36.53 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 74 (a)
ManyToMany
-- 36
  • 48 (a)
ManyToMany
Species with no ortholog for SMARCD3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for SMARCD3 Gene

ENSEMBL:
Gene Tree for SMARCD3 (if available)
TreeFam:
Gene Tree for SMARCD3 (if available)

Paralogs for SMARCD3 Gene

Paralogs for SMARCD3 Gene

Selected SIMAP similar genes for SMARCD3 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with SMARCD3: view

Variants for SMARCD3 Gene

Sequence variations from dbSNP and Humsavar for SMARCD3 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type MAF
rs122815 -- 151,243,571(-) TCAGC(A/G)TCACA intron-variant
rs219227 -- 151,242,273(+) AGGGA(C/T)GAGGT intron-variant
rs219228 -- 151,242,310(+) GCAGC(A/C)GACAG intron-variant
rs219229 -- 151,243,781(+) ATCCC(A/G)ACATC intron-variant
rs219230 -- 151,244,523(+) CTATG(C/T)AGAAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SMARCD3 Gene

Variant ID Type Subtype PubMed ID
nsv889476 CNV Loss 21882294
nsv889487 CNV Loss 21882294
nsv889488 CNV Loss 21882294
nsv465216 CNV Loss 19166990

Relevant External Links for SMARCD3 Gene

HapMap Linkage Disequilibrium report
SMARCD3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SMARCD3 Gene

Disorders for SMARCD3 Gene

No disorders were found for SMARCD3 Gene.

No data available for UniProtKB/Swiss-Prot for SMARCD3 Gene

Publications for SMARCD3 Gene

  1. Diversity and specialization of mammalian SWI/SNF complexes. (PMID: 8804307) Wang W. … Crabtree G.R. (Genes Dev. 1996) 2 3 4
  2. The DNA sequence of human chromosome 7. (PMID: 12853948) Hillier L.W. … Wilson R.K. (Nature 2003) 3 4
  3. Five SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin (SMARC) genes are dispersed in the human genome. (PMID: 9693044) Ring H.Z. … Francke U. (Genomics 1998) 2 3
  4. Transcription factors and nuclear receptors interact with the SWI/SNF complex through the BAF60c subunit. (PMID: 14701856) Debril M.-B. … Auwerx J. (J. Biol. Chem. 2004) 3 4
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4

Products for SMARCD3 Gene

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat
  • Pathway & Disease-focused RT² Profiler PCR Arrays
    • Epigenetic Chromatin Remodeling Factors in human,mouse,rat
    • PPAR Targets in human,mouse,rat
    • Polycomb & Trithorax Complexes in human,mouse,rat
  • QIAGEN qRT-PCR Assays for microRNAs that regulate SMARCD3
    • QuantiTect SYBR Green Assays in human,mouse,rat
    • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
    • QuantiFast Probe-based Assays in human,mouse,rat
    • Predesigned siRNA for gene silencing in human,mouse,rat for SMARCD3
    • Block miRNA regulation of SMARCD3 using miScript Target Protectors

    Sources for SMARCD3 Gene

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