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    Smarca2 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361745, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Smarca2provided by RGD
    Official Full Name
    SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2provided by RGD
    Primary source
    RGD:1302988
    See related
    EnsemblRapid:ENSRNOG00000011931 AllianceGenome:RGD:1302988
    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
    Summary
    Enables chromatin binding activity. Involved in spermatid development. Predicted to be located in chromatin; intermediate filament cytoskeleton; and nucleoplasm. Predicted to be part of SWI/SNF complex; nBAF complex; and npBAF complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in Nicolaides-Baraitser syndrome and blepharophimosis-impaired intellectual development syndrome. Orthologous to human SMARCA2 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Lung (RPKM 144.5), Brain (RPKM 123.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Smarca2 in Genome Data Viewer
    Location:
    1q52
    Exon count:
    44
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (233617277..233784908)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (224191125..224358640)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (244615811..244783736)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134483984 Neighboring gene uncharacterized LOC103691317 Neighboring gene uncharacterized LOC134483985 Neighboring gene uncharacterized LOC134485214 Neighboring gene uncharacterized LOC108348917

    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 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. SWI/SNF chromatin remodeling ATPase Brm regulates the differentiation of early retinal stem cells/progenitors by influencing Brn3b expression and Notch signaling. Das AV, et al. J Biol Chem, 2007 Nov 30. PMID 17855369
    2. Two human homologues of Saccharomyces cerevisiae SWI2/SNF2 and Drosophila brahma are transcriptional coactivators cooperating with the estrogen receptor and the retinoic acid receptor. Chiba H, et al. Nucleic Acids Res, 1994 May 25. PMID 8208605, Free PMC Article
    3. Differential preimplantation regulation of two mouse homologues of the yeast SWI2 protein. LeGouy E, et al. Dev Dyn, 1998 May. PMID 9603422
    4. The CCAAT enhancer-binding protein alpha (C/EBPalpha) requires a SWI/SNF complex for proliferation arrest. Müller C, et al. J Biol Chem, 2004 Feb 20. PMID 14660596
    5. Chromatin remodeling and histone modification in the conversion of oligodendrocyte precursors to neural stem cells. Kondo T, et al. Genes Dev, 2004 Dec 1. PMID 15574597, Free PMC Article

    See all (23) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Brm/Smarca2 regulates the differentiation of early retinal stem cells/progenitors by influencing Brn3b expression and Notch signaling
      Title: SWI/SNF chromatin remodeling ATPase Brm regulates the differentiation of early retinal stem cells/progenitors by influencing Brn3b expression and Notch signaling.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP-dependent chromatin remodeler activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleosome array spacer activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transcription cis-regulatory region binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within aortic smooth muscle cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of fibroblast proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within hematopoietic stem cell homeostasis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in heterochromatin formation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of cell growth ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of fibroblast proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 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 RSC-type complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of SWI/SNF complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intermediate filament cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intermediate filament cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle 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 IEA
    Inferred from Electronic Annotation
    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
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    probable global transcription activator SNF2L2

    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_001004446.2 → NP_001004446.2  probable global transcription activator SNF2L2 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      E9PTG1
      Related
      ENSRNOP00000016740.3, ENSRNOT00000016740.7

    2. NM_001429133.1 → NP_001416062.1  probable global transcription activator SNF2L2 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      E9PTG1

    3. NM_001429134.1 → NP_001416063.1  probable global transcription activator SNF2L2 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      E9PTG1

    4. NM_001429135.1 → NP_001416064.1  probable global transcription activator SNF2L2 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A0A8I6ARN7

    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_086019.1 Reference GRCr8

      Range
      233617277..233784908
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063268536.1 → XP_063124606.1  probable global transcription activator SNF2L2 isoform X2

      Related
      ENSRNOP00000080701.2, ENSRNOT00000110315.2

    2. XM_063268547.1 → XP_063124617.1  probable global transcription activator SNF2L2 isoform X4

    3. XM_063268552.1 → XP_063124622.1  probable global transcription activator SNF2L2 isoform X5

      Related
      ENSRNOP00000069210.2, ENSRNOT00000080124.3

    4. XM_063268505.1 → XP_063124575.1  probable global transcription activator SNF2L2 isoform X1

    5. XM_063268513.1 → XP_063124583.1  probable global transcription activator SNF2L2 isoform X1

      UniProtKB/TrEMBL
      E9PTG1

    6. XM_063268525.1 → XP_063124595.1  probable global transcription activator SNF2L2 isoform X1

      UniProtKB/TrEMBL
      E9PTG1

    7. XM_063268522.1 → XP_063124592.1  probable global transcription activator SNF2L2 isoform X1

      UniProtKB/TrEMBL
      E9PTG1

    8. XM_063268509.1 → XP_063124579.1  probable global transcription activator SNF2L2 isoform X1

      UniProtKB/TrEMBL
      E9PTG1

    9. XM_063268533.1 → XP_063124603.1  probable global transcription activator SNF2L2 isoform X1

      UniProtKB/TrEMBL
      E9PTG1

    10. XM_063268529.1 → XP_063124599.1  probable global transcription activator SNF2L2 isoform X1

      UniProtKB/TrEMBL
      E9PTG1

    11. XM_063268502.1 → XP_063124572.1  probable global transcription activator SNF2L2 isoform X1

      Related
      ENSRNOP00000095555.2, ENSRNOT00000095776.2

    12. XM_063268527.1 → XP_063124597.1  probable global transcription activator SNF2L2 isoform X1

      UniProtKB/TrEMBL
      E9PTG1

    13. XM_063268545.1 → XP_063124615.1  probable global transcription activator SNF2L2 isoform X3

    14. XM_063268564.1 → XP_063124634.1  probable global transcription activator SNF2L2 isoform X6

      Related
      ENSRNOP00000089540.1, ENSRNOT00000116235.2

    15. XM_063268556.1 → XP_063124626.1  probable global transcription activator SNF2L2 isoform X6

      Related
      ENSRNOP00000079036.2, ENSRNOT00000097032.2

    16. XM_063268562.1 → XP_063124632.1  probable global transcription activator SNF2L2 isoform X6

    17. XM_063268559.1 → XP_063124629.1  probable global transcription activator SNF2L2 isoform X6

    RNA

    1. XR_010055135.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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