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    Smarca5 SNF2 related chromatin remodeling ATPase 5 [ Mus musculus (house mouse) ]

    Gene ID: 93762, updated on 9-Dec-2024

    Summary

    Official Symbol
    Smarca5provided by MGI
    Official Full Name
    SNF2 related chromatin remodeling ATPase 5provided by MGI
    Primary source
    MGI:MGI:1935129
    See related
    Ensembl:ENSMUSG00000031715 AllianceGenome:MGI:1935129
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Snf2h; MommeD4; 4933427E24Rik; D030040M08Rik; D330027N15Rik
    Summary
    Predicted to enable several functions, including ATP binding activity; ATP hydrolysis activity; and nucleosome array spacer activity. Predicted to contribute to histone binding activity. Involved in negative regulation of macromolecule biosynthetic process and positive regulation of DNA replication. Acts upstream of or within cellular response to leukemia inhibitory factor; chromatin organization; and positive regulation of DNA-templated transcription. Located in nucleus and pericentric heterochromatin. Part of NoRC complex and chromatin silencing complex. Is expressed in several structures, including alimentary system; genitourinary system; nervous system; respiratory system; and sensory organ. Orthologous to human SMARCA5 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 25.9), liver E14 (RPKM 13.9) and 27 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Smarca5 in Genome Data Viewer
    Location:
    8 C2; 8 38.41 cM
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (81426572..81466088, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (80699943..80739459, complement)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 39209 Neighboring gene predicted gene, 46044 Neighboring gene Fras1 related extracellular matrix protein 3 Neighboring gene STARR-seq mESC enhancer starr_22039 Neighboring gene STARR-seq mESC enhancer starr_22040 Neighboring gene STARR-positive B cell enhancer ABC_E8847 Neighboring gene lactate dehydrogenase A pseudogene Neighboring gene growth factor receptor bound protein 2-associated protein 1 Neighboring gene predicted gene, 51580

    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

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP hydrolysis activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables ATP-dependent chromatin remodeler activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables ATP-dependent chromatin remodeler activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables helicase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone binding IEA
    Inferred from Electronic Annotation
    more info
     
    contributes_to histone binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables histone octamer slider activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables nucleosome array spacer activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables nucleosome binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in DNA damage response NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in DNA methylation-dependent constitutive heterochromatin formation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in DNA repair ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in DNA repair ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in DNA-templated transcription initiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in DNA-templated transcription initiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in antiviral innate immune response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in antiviral innate immune response ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cellular response to leukemia inhibitory factor IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    acts_upstream_of_or_within chromatin organization IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in chromatin organization ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within chromatin remodeling IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in chromatin remodeling IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within chromatin remodeling IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in chromatin remodeling NAS
    Non-traceable Author Statement
    more info
    PubMed 
    acts_upstream_of_or_within embryo development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in heterochromatin formation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in heterochromatin formation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of mitotic chromosome condensation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription by RNA polymerase I IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in nucleosome assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of DNA replication IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of DNA replication ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of DNA-templated transcription TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase I NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase III ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in rDNA heterochromatin formation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of DNA replication ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of ACF complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of B-WICH complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of CERF complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of CHRAC NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of ISWI-type complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    part_of NURF complex IEA
    Inferred from Electronic Annotation
    more info
     
    part_of NURF complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of NoRC complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    part_of RSF complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of WICH complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of chromatin silencing complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in condensed chromosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in condensed chromosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in fibrillar center IEA
    Inferred from Electronic Annotation
    more info
     
    located_in fibrillar center ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear replication fork IEA
    Inferred from Electronic Annotation
    more info
     
    colocalizes_with nuclear replication fork ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleolus NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in pericentric heterochromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in pericentric heterochromatin ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in site of double-strand break ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in site of double-strand break ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5
    Names
    SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5
    mSnf2h
    sucrose nonfermenting protein 2 homolog

    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_053124.2NP_444354.2  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5

      See identical proteins and their annotated locations for NP_444354.2

      Status: PROVISIONAL

      Source sequence(s)
      BC053069
      Consensus CDS
      CCDS22442.1
      UniProtKB/Swiss-Prot
      Q8C791, Q8CA22, Q8VDG1, Q91ZW3, Q925M9
      Related
      ENSMUSP00000044361.9, ENSMUST00000043359.9
      Conserved Domains (7) summary
      smart00717
      Location:841882
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      cd00046
      Location:199338
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      cd00167
      Location:843882
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
      pfam00176
      Location:182462
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:481596
      Helicase_C; Helicase conserved C-terminal domain
      pfam09110
      Location:742827
      HAND; HAND
      pfam09111
      Location:8971009
      SLIDE; SLIDE

    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_000074.7 Reference GRCm39 C57BL/6J

      Range
      81426572..81466088 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)