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    Smarcc1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 301020, updated on 21-Jul-2018

    Summary

    Official Symbol
    Smarcc1provided by RGD
    Official Full Name
    SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1provided by RGD
    Primary source
    RGD:1304850
    See related
    Ensembl:ENSRNOG00000020804
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Expression
    Biased expression in Thymus (RPKM 136.8), Spleen (RPKM 109.5) and 9 other tissues See more
    Orthologs

    Genomic context

    See Smarcc1 in Genome Data Viewer
    Location:
    8q32
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (118206678..118326264)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 8 NC_005107.3 (117561593..117677011)

    Chromosome 8 - NC_005107.4Genomic Context describing neighboring genes Neighboring gene microtubule-associated protein 4 Neighboring gene DExH-box helicase 30 Neighboring gene uncharacterized LOC102547516 Neighboring gene chondroitin sulfate proteoglycan 5

    Genomic regions, transcripts, and products

    Expression

    • Project title: 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

    Pathways from BioSystems

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    chromatin binding IEA
    Inferred from Electronic Annotation
    more info
     
    chromatin binding ISO
    Inferred from Sequence Orthology
    more info
     
    molecular_function ND
    No biological Data available
    more info
     
    protein N-terminus binding IEA
    Inferred from Electronic Annotation
    more info
     
    protein N-terminus binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    ATP-dependent chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
     
    animal organ morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    animal organ morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
     
    insulin receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    insulin receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of proteasomal ubiquitin-dependent protein catabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of proteasomal ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    nucleosome disassembly IEA
    Inferred from Electronic Annotation
    more info
     
    nucleosome disassembly ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    prostate gland development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    Component Evidence Code Pubs
    SWI/SNF complex IEA
    Inferred from Electronic Annotation
    more info
     
    SWI/SNF complex ISO
    Inferred from Sequence Orthology
    more info
     
    XY body IEA
    Inferred from Electronic Annotation
    more info
     
    XY body ISO
    Inferred from Sequence Orthology
    more info
     
    cellular_component ND
    No biological Data available
    more info
     
    cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    intracellular ISO
    Inferred from Sequence Orthology
    more info
     
    nBAF complex IEA
    Inferred from Electronic Annotation
    more info
     
    nBAF complex ISO
    Inferred from Sequence Orthology
    more info
     
    npBAF complex IEA
    Inferred from Electronic Annotation
    more info
     
    npBAF complex ISO
    Inferred from Sequence Orthology
    more info
     
    nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    SWI/SNF complex subunit SMARCC1

    NCBI Reference Sequences (RefSeq)

    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_001106861.1NP_001100331.1  SWI/SNF complex subunit SMARCC1

      See identical proteins and their annotated locations for NP_001100331.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473954
      UniProtKB/TrEMBL
      D3ZJU5
      Related
      ENSRNOP00000060434.1, ENSRNOT00000064140.1
      Conserved Domains (5) summary
      COG5259
      Location:443709
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam04433
      Location:451536
      SWIRM; SWIRM domain
      pfam16495
      Location:882953
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:31444
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:705769
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005107.4 Reference Rnor_6.0 Primary Assembly

      Range
      118206678..118326264
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006243770.3XP_006243832.1  SWI/SNF complex subunit SMARCC1 isoform X1

      See identical proteins and their annotated locations for XP_006243832.1

      Conserved Domains (5) summary
      COG5259
      Location:443709
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam04433
      Location:451536
      SWIRM; SWIRM domain
      pfam16495
      Location:882953
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:31444
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:705769
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
    2. XM_006243772.3XP_006243834.1  SWI/SNF complex subunit SMARCC1 isoform X3

      Conserved Domains (5) summary
      COG5259
      Location:443709
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam04433
      Location:451536
      SWIRM; SWIRM domain
      pfam16495
      Location:882953
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:31444
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:705769
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
    3. XM_006243771.3XP_006243833.1  SWI/SNF complex subunit SMARCC1 isoform X2

      UniProtKB/TrEMBL
      A0A0G2K9D6
      Related
      ENSRNOP00000074957.1, ENSRNOT00000082607.1
      Conserved Domains (5) summary
      COG5259
      Location:443709
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam04433
      Location:451536
      SWIRM; SWIRM domain
      pfam16495
      Location:882953
      SWIRM-assoc_1; SWIRM-associated region 1
      pfam16496
      Location:31444
      SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
      pfam16498
      Location:705769
      SWIRM-assoc_3; SWIRM-associated domain at the C-terminal

    Alternate Rn_Celera

    Genomic

    1. AC_000076.1 Alternate Rn_Celera

      Range
      109398958..109497187
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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