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    Smarcb1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1 [ Mus musculus (house mouse) ]

    Gene ID: 20587, updated on 24-Aug-2021

    Summary

    Official Symbol
    Smarcb1provided by MGI
    Official Full Name
    SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1provided by MGI
    Primary source
    MGI:MGI:1328366
    See related
    Ensembl:ENSMUSG00000000902
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    I; Sn; Baf4; Ini1; Snf5; Baf47; AU020204; SNF5/INI1
    Expression
    Ubiquitous expression in adrenal adult (RPKM 44.4), CNS E11.5 (RPKM 42.9) and 28 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Smarcb1 in Genome Data Viewer
    Location:
    10; 10 C1
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (75732603..75757448, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (75896769..75921614, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 10 NC_000076.5 (75359514..75384359, complement)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 40697 Neighboring gene Der1-like domain family, member 3 Neighboring gene matrix metallopeptidase 11 Neighboring gene coiled-coil-helix-coiled-coil-helix domain containing 10 Neighboring gene predicted gene 867

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC132387

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to RNA polymerase I core promoter sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables Tat protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables p53 binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription coregulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within blastocyst development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within blastocyst hatching IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within cell cycle IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within chromatin organization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within negative regulation of cell population proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of histone H3-K9 dimethylation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of histone H3-K9 trimethylation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within nervous system development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in nucleosome disassembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation by host of viral transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of glucose mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of histone H3-K9 acetylation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of histone H4 acetylation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of transcription of nucleolar large rRNA by RNA polymerase I ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    acts_upstream_of_or_within single stranded viral RNA replication via double stranded DNA intermediate ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of SWI/SNF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of SWI/SNF complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of SWI/SNF complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of SWI/SNF superfamily-type complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in XY body IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of brahma complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    located_in fibrillar center ISO
    Inferred from Sequence Orthology
    more info
     
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    part_of nBAF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of nBAF complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of npBAF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of npBAF complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nuclear chromosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1
    Names
    BRG1-associated factor 47
    SNF5 homolog
    integrase interactor 1 protein
    mSNF5

    NCBI Reference Sequences (RefSeq)

    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_001161853.1NP_001155325.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 isoform 2

      See identical proteins and their annotated locations for NP_001155325.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 3' end of an exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      AI840539, AK145552, AK150169
      Consensus CDS
      CCDS48602.1
      UniProtKB/TrEMBL
      Q3UDA4
      Related
      ENSMUSP00000112463.2, ENSMUST00000121304.2
      Conserved Domains (2) summary
      pfam04855
      Location:172354
      SNF5; SNF5 / SMARCB1 / INI1
      cd21086
      Location:998
      WH_NTD_SMARCB1; N-terminal winged helix DNA-binding domain found in SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 (SMARCB1) and similar proteins
    2. NM_011418.2NP_035548.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 isoform 1

      See identical proteins and their annotated locations for NP_035548.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AI840539, AK075906, AK150169
      Consensus CDS
      CCDS23936.1
      UniProtKB/Swiss-Prot
      Q9Z0H3
      UniProtKB/TrEMBL
      Q3UDA4, Q6ZWP4
      Related
      ENSMUSP00000000925.4, ENSMUST00000000925.10
      Conserved Domains (2) summary
      pfam04855
      Location:181363
      SNF5; SNF5 / SMARCB1 / INI1
      cd21086
      Location:9107
      WH_NTD_SMARCB1; N-terminal winged helix DNA-binding domain found in SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 (SMARCB1) and similar proteins

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000076.7 Reference GRCm39 C57BL/6J

      Range
      75732603..75757448 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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