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    Smarcc2 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2 [ Mus musculus (house mouse) ]

    Gene ID: 68094, updated on 8-Jan-2023

    Summary

    Official Symbol
    Smarcc2provided by MGI
    Official Full Name
    SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2provided by MGI
    Primary source
    MGI:MGI:1915344
    See related
    Ensembl:ENSMUSG00000025369 AllianceGenome:MGI:1915344
    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
    5930405J04Rik
    Summary
    Enables chromatin binding activity. Acts upstream of or within negative regulation of transcription by RNA polymerase II. Part of SWI/SNF complex; nBAF complex; and npBAF complex. Is expressed in cranial ganglion; genitourinary system; and inner ear. Orthologous to human SMARCC2 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin subfamily c member 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in CNS E14 (RPKM 85.9), whole brain E14.5 (RPKM 78.9) and 28 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Smarcc2 in Genome Data Viewer
    Location:
    10; 10 D3
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (128294823..128326460)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (128459182..128490591)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene nuclear encoded tRNA serine 2 (anticodon CGA) Neighboring gene microRNA 8105 Neighboring gene myosin, light polypeptide 6, alkali, smooth muscle and non-muscle Neighboring gene myosin, light polypeptide 6B

    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)
    • Targeted (4)  1 citation
    • Endonuclease-mediated (1) 

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    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
     
    involved_in chromatin remodeling NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    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 of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of T cell differentiation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in positive regulation of cell differentiation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in positive regulation of double-strand break repair NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in positive regulation of myoblast differentiation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in regulation of G0 to G1 transition NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in regulation of G1/S transition of mitotic cell cycle NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in regulation of mitotic metaphase/anaphase transition NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in regulation of nucleotide-excision repair NAS
    Non-traceable Author Statement
    more info
    PubMed 
    acts_upstream_of_or_within regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of transcription by RNA polymerase II NAS
    Non-traceable Author Statement
    more info
    PubMed 
    acts_upstream_of transcription by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of RSC-type complex NAS
    Non-traceable Author Statement
    more info
    PubMed 
    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 complex NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of SWI/SNF superfamily-type complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of bBAF complex NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of brahma complex NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in chromatin NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in kinetochore NAS
    Non-traceable Author Statement
    more info
    PubMed 
    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 nBAF complex NAS
    Non-traceable Author Statement
    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 
    part_of npBAF complex NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in nuclear matrix NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    SWI/SNF complex subunit SMARCC2
    Names
    BAF170
    BRG1-associated factor 170
    SWI/SNF complex 170 kDa subunit
    SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily C member 2

    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_001114096.1NP_001107568.1  SWI/SNF complex subunit SMARCC2 isoform 2

      See identical proteins and their annotated locations for NP_001107568.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has an additional in-frame exon in the central coding region and lacks an in-frame segment in the 3' coding region, compared to variant 1. The resulting isoform (2) is shorter and has an additional segment in the central region but lacks an internal segment in the C-terminal region, compared to isoform 1.
      Source sequence(s)
      AI463326, AK146971, BC058720, CB248220
      Consensus CDS
      CCDS48726.1
      UniProtKB/Swiss-Prot
      Q6PDG5
      UniProtKB/TrEMBL
      A0A6P5QJP5, Q3UID0
      Related
      ENSMUSP00000096734.4, ENSMUST00000099131.11
      Conserved Domains (5) summary
      COG5259
      Location:379739
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam16495
      Location:911977
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:7420
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:715779
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
      cl30717
      Location:719874
      InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]
    2. NM_001114097.1NP_001107569.1  SWI/SNF complex subunit SMARCC2 isoform 1

      See identical proteins and their annotated locations for NP_001107569.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AI463326, BC058720, BC062102, CB248220
      Consensus CDS
      CCDS48727.1
      UniProtKB/Swiss-Prot
      Q6P6P3, Q6PDG5
      UniProtKB/TrEMBL
      A0A6P5QD21
      Related
      ENSMUSP00000100868.3, ENSMUST00000105235.10
      Conserved Domains (6) summary
      PTZ00121
      Location:690926
      PTZ00121; MAEBL; Provisional
      PHA03247
      Location:9631202
      PHA03247; large tegument protein UL36; Provisional
      COG5259
      Location:379708
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam16495
      Location:880946
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:7420
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:684748
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
    3. NM_001372395.1NP_001359324.1  SWI/SNF complex subunit SMARCC2 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC170752
      UniProtKB/TrEMBL
      A0A6P5QJV1
      Conserved Domains (6) summary
      PTZ00121
      Location:721957
      PTZ00121; MAEBL; Provisional
      PHA03247
      Location:9941233
      PHA03247; large tegument protein UL36; Provisional
      COG5259
      Location:379739
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam16495
      Location:911977
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:7420
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:715779
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
    4. NM_198160.2NP_937803.1  SWI/SNF complex subunit SMARCC2 isoform 3

      See identical proteins and their annotated locations for NP_937803.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an in-frame segment in the 3' coding region, compared to variant 1. The resulting isoform (3) is shorter and lacks an internal segment in the C-terminal region, compared to isoform 1.
      Source sequence(s)
      AI463326, BC058720, CB248220
      Consensus CDS
      CCDS24278.1
      UniProtKB/Swiss-Prot
      Q6PDG5
      UniProtKB/TrEMBL
      A0A6P5QLK2
      Related
      ENSMUSP00000026433.8, ENSMUST00000026433.9
      Conserved Domains (5) summary
      COG5259
      Location:379708
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam16495
      Location:880946
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:7420
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:684748
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
      cl30717
      Location:688843
      InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]

    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
      128294823..128326460
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006514023.5XP_006514086.1  SWI/SNF complex subunit SMARCC2 isoform X3

      Conserved Domains (5) summary
      COG5259
      Location:379739
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam16495
      Location:911977
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:7420
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:715779
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
      cl30717
      Location:719874
      InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]
    2. XM_006514021.5XP_006514084.1  SWI/SNF complex subunit SMARCC2 isoform X1

      UniProtKB/TrEMBL
      A0A6P7RR74
      Conserved Domains (6) summary
      PTZ00121
      Location:720956
      PTZ00121; MAEBL; Provisional
      PHA03247
      Location:9931232
      PHA03247; large tegument protein UL36; Provisional
      COG5259
      Location:379738
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam16495
      Location:910976
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:7420
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:714778
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
    3. XM_006514024.5XP_006514087.1  SWI/SNF complex subunit SMARCC2 isoform X4

      Conserved Domains (5) summary
      COG5259
      Location:379738
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam16495
      Location:910976
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:7420
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:714778
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
      cl30717
      Location:718873
      InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]
    4. XM_036155968.1XP_036011861.1  SWI/SNF complex subunit SMARCC2 isoform X5

      Conserved Domains (5) summary
      COG5259
      Location:379738
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      cl30717
      Location:718873
      InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]
      pfam16495
      Location:910976
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:7420
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:714778
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
    5. XM_036155969.1XP_036011862.1  SWI/SNF complex subunit SMARCC2 isoform X6

      Conserved Domains (5) summary
      COG5259
      Location:379708
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      cl30717
      Location:688843
      InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]
      pfam16495
      Location:880946
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:7420
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:684748
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
    6. XM_006514022.5XP_006514085.1  SWI/SNF complex subunit SMARCC2 isoform X2

      UniProtKB/TrEMBL
      A0A6P5QQX7
      Conserved Domains (6) summary
      PTZ00121
      Location:689925
      PTZ00121; MAEBL; Provisional
      PHA03247
      Location:9621201
      PHA03247; large tegument protein UL36; Provisional
      COG5259
      Location:379707
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam16495
      Location:879945
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:7420
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:683747
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
    7. XM_036155970.1XP_036011863.1  SWI/SNF complex subunit SMARCC2 isoform X7

      Conserved Domains (5) summary
      COG5259
      Location:379707
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      cl30717
      Location:687842
      InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]
      pfam16495
      Location:879945
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:7420
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:683747
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
    8. XM_030245245.2XP_030101105.1  SWI/SNF complex subunit SMARCC2 isoform X8

      Conserved Domains (5) summary
      COG5259
      Location:379707
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam16495
      Location:879945
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:7420
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:683747
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
      cl30717
      Location:687842
      InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]