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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 7-May-2024

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
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Genomic context

See Smarcc2 in Genome Data Viewer
Location:
10 D3; 10 76.59 cM
Exon count:
29
Annotation release Status Assembly Chr Location
RS_2024_02 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 STARR-positive B cell enhancer ABC_E1816 Neighboring gene myosin, light polypeptide 6, alkali, smooth muscle and non-muscle Neighboring gene STARR-positive B cell enhancer ABC_E8378 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)
  • Endonuclease-mediated (2) 
  • Targeted (4)  1 citation

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

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
 
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
 
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
 
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 
part_of 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
 
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
 
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)

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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_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/TrEMBL
    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
    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
    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
    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: GCF_000001635.27-RS_2024_02

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

    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

    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]