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Smarce1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 303518, updated on 13-Apr-2024

Summary

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Official Symbol
Smarce1provided by RGD
Official Full Name
SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1provided by RGD
Primary source
RGD:1304726
See related
Ensembl:ENSRNOG00000010676 AllianceGenome:RGD:1304726
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
BAF57; RGD1304726
Summary
Enables protein N-terminus binding activity. Involved in brain development; negative regulation of transcription, DNA-templated; and spermatid development. Located in nucleus. Human ortholog(s) of this gene implicated in familial meningioma. Orthologous to human SMARCE1 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 292.1), Lung (RPKM 237.1) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Smarce1 in Genome Data Viewer
Location:
10q31
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (84655468..84678259, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (84159270..84180547, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (87116827..87138890, complement)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene transfer RNA serine (anticodon AGA) 39 Neighboring gene uncharacterized LOC120095183 Neighboring gene C-C motif chemokine receptor 7 Neighboring gene keratin 222 Neighboring gene uncharacterized LOC134480870 Neighboring gene uncharacterized LOC134480871

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. N-terminally truncated BAF57 isoforms contribute to the diversity of SWI/SNF complexes in neurons. Kazantseva A, et al. J Neurochem, 2009 May. PMID 19245665
  2. Targeted next-generation sequencing for differential diagnosis of neurofibromatosis type 2, schwannomatosis, and meningiomatosis. Louvrier C, et al. Neuro Oncol, 2018 Jun 18. PMID 29409008, Free PMC Article
  3. Neuregulin-1 modulates the differentiation of neural stem cells in vitro through an interaction with the Swi/Snf complex. Pirotte D, et al. Mol Cell Neurosci, 2010 Jan. PMID 19781646
  4. Insights into role of bromodomain, testis-specific (Brdt) in acetylated histone H4-dependent chromatin remodeling in mammalian spermiogenesis. Dhar S, et al. J Biol Chem, 2012 Feb 24. PMID 22215678, Free PMC Article
  5. The long noncoding RNA Six3OS acts in trans to regulate retinal development by modulating Six3 activity. Rapicavoli NA, et al. Neural Dev, 2011 Sep 21. PMID 21936910, Free PMC Article

See all (22) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The N terminus of Brdt is involved in the recognition of Smarce1 as well as in the reorganization of hyperacetylated round spermatid chromatin.
    Title: Insights into role of bromodomain, testis-specific (Brdt) in acetylated histone H4-dependent chromatin remodeling in mammalian spermiogenesis.
Submit: New GeneRIF Correction

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables N-acetyltransferase activity ISO
Inferred from Sequence Orthology
more info
  
enables RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables nuclear receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables nuclear receptor binding ISO
Inferred from Sequence Orthology
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in chromatin remodeling ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within neurogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in nucleosome disassembly ISO
Inferred from Sequence Orthology
more info
  
involved_in spermatid development IEP
Inferred from Expression Pattern
more info
 PubMed 
Component Evidence Code Pubs
part_of SWI/SNF complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of SWI/SNF complex ISO
Inferred from Sequence Orthology
more info
  
part_of nBAF complex ISO
Inferred from Sequence Orthology
more info
  
part_of npBAF complex ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1
Names
BRG1-associated factor 57

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_001024993.2 → NP_001020164.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1 isoform 2

    See identical proteins and their annotated locations for NP_001020164.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000010
    UniProtKB/Swiss-Prot
    C0IMX4, C0IMX5, C0IMX6, Q56A18, Q5BJV2
    UniProtKB/TrEMBL
    E9PU44
    Related
    ENSRNOP00000014230.7, ENSRNOT00000014230.8
    Conserved Domains (1) summary
    cd01390
    Location:35 → 96
    HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

  2. NM_001399629.1 → NP_001386558.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000010
    UniProtKB/TrEMBL
    A6HIW9
    Related
    ENSRNOP00000074941.2, ENSRNOT00000083233.2

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086028.1 Reference GRCr8

    Range
    84655468..84678259 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039086083.2 → XP_038942011.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1 isoform X2

    UniProtKB/TrEMBL
    A6HIX0, E9PU44
    Conserved Domains (2) summary
    PTZ00121
    Location:180 → 302
    PTZ00121; MAEBL; Provisional
    cd01390
    Location:2 → 61
    HMGB-UBF_HMG-box; class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal ...

  2. XM_039086085.2 → XP_038942013.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1 isoform X1

    UniProtKB/TrEMBL
    E9PU44
    Conserved Domains (2) summary
    PTZ00121
    Location:127 → 393
    PTZ00121; MAEBL; Provisional
    cd01390
    Location:52 → 113
    HMGB-UBF_HMG-box; class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal ...

  3. XM_039086082.2 → XP_038942010.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1 isoform X2

    UniProtKB/TrEMBL
    A6HIX0, E9PU44
    Conserved Domains (2) summary
    PTZ00121
    Location:180 → 302
    PTZ00121; MAEBL; Provisional
    cd01390
    Location:2 → 61
    HMGB-UBF_HMG-box; class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal ...

  4. XM_039086084.2 → XP_038942012.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1 isoform X2

    UniProtKB/TrEMBL
    A6HIX0, E9PU44
    Conserved Domains (2) summary
    PTZ00121
    Location:180 → 302
    PTZ00121; MAEBL; Provisional
    cd01390
    Location:2 → 61
    HMGB-UBF_HMG-box; class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal ...
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q56A18.1 GenPept UniProtKB/Swiss-Prot:Q56A18

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