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    Sin3a transcriptional regulator, SIN3A (yeast) [ Mus musculus (house mouse) ]

    Gene ID: 20466, updated on 21-May-2024

    Summary

    Official Symbol
    Sin3aprovided by MGI
    Official Full Name
    transcriptional regulator, SIN3A (yeast)provided by MGI
    Primary source
    MGI:MGI:107157
    See related
    Ensembl:ENSMUSG00000042557 AllianceGenome:MGI:107157
    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
    Sin3; mSin3A; mKIAA4126
    Summary
    Enables several functions, including RNA polymerase II-specific DNA-binding transcription factor binding activity; chromatin binding activity; and transcription corepressor activity. Involved in several processes, including cerebral cortex neuron differentiation; negative regulation of circadian rhythm; and regulation of axon extension. Acts upstream of or within several processes, including cellular response to glucose stimulus; positive regulation of G2/M transition of mitotic cell cycle; and response to methylglyoxal. Located in kinetochore and nucleus. Part of transcription repressor complex. Is expressed in several structures, including central nervous system; early conceptus; genitourinary system; and retina. Human ortholog(s) of this gene implicated in chromosome 15q24 deletion syndrome. Orthologous to human SIN3A (SIN3 transcription regulator family member A). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 17.1), thymus adult (RPKM 15.7) and 28 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Sin3a in Genome Data Viewer
    Location:
    9 B; 9 30.89 cM
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (56979271..57035652)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (57071991..57128368)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:56798396-56798654 Neighboring gene snurportin 1 Neighboring gene STARR-seq mESC enhancer starr_24215 Neighboring gene protein tyrosine phosphatase, non-receptor type 9 Neighboring gene predicted gene 10658 Neighboring gene STARR-positive B cell enhancer ABC_E5069 Neighboring gene STARR-seq mESC enhancer starr_24217 Neighboring gene RIKEN cDNA 2700012I20 gene Neighboring gene STARR-positive B cell enhancer ABC_E9329 Neighboring gene STARR-positive B cell enhancer ABC_E711 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:56978348-56978531 Neighboring gene STARR-positive B cell enhancer ABC_E3832 Neighboring gene mannosidase, alpha, class 2C, member 1, opposite strand Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:56995851-56996034 Neighboring gene STARR-positive B cell enhancer ABC_E5070 Neighboring gene mannosidase, alpha, class 2C, member 1 Neighboring gene nei endonuclease VIII-like 1 (E. coli)

    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 (5) 
    • Targeted (2)  1 citation

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • KIAA4126

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables RNA polymerase II-specific DNA-binding transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables RNA polymerase II-specific DNA-binding transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein-containing complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription corepressor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables transcription corepressor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables transcription corepressor activity IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    enables transcription corepressor activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables transcription corepressor activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables transcription regulator inhibitor activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA replication IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in activation of innate immune response ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cellular response to glucose stimulus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cellular response to tert-butyl hydroperoxide ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cerebral cortex neuron differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within hematopoietic progenitor cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in heterochromatin formation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within in utero embryonic development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within negative regulation of apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of cell migration NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of protein localization to nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of stem cell population maintenance NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of transforming growth factor beta receptor signaling pathway NAS
    Non-traceable Author Statement
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of G2/M transition of mitotic cell cycle IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of defense response to virus by host ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of neuron differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of stem cell population maintenance NAS
    Non-traceable Author Statement
    more info
    PubMed 
    acts_upstream_of_or_within protein localization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of axon extension IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of hormone levels ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within response to methylglyoxal IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in response to organonitrogen compound ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within rhythmic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in type I interferon-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of Sin3-type complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of Sin3-type complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    part_of histone deacetylase complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in kinetochore IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    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 nucleus NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of transcription regulator complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    part_of transcription repressor complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of transcription repressor complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 

    General protein information

    Preferred Names
    paired amphipathic helix protein Sin3a
    Names
    histone deacetylase complex subunit Sin3a
    transcriptional corepressor Sin3a
    transcriptional regulator, SIN3 yeast homolog A

    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_001110350.2NP_001103820.1  paired amphipathic helix protein Sin3a isoform 2

      See identical proteins and their annotated locations for NP_001103820.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is longer compared to isoform 1.
      Source sequence(s)
      AC132406
      Consensus CDS
      CCDS52805.1
      UniProtKB/Swiss-Prot
      Q60520
      Related
      ENSMUSP00000130221.2, ENSMUST00000168177.8
      Conserved Domains (1) summary
      COG5602
      Location:81217
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
    2. NM_001110351.2NP_001103821.1  paired amphipathic helix protein Sin3a isoform 1

      See identical proteins and their annotated locations for NP_001103821.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1, 3, and 4 all encode the same isoform (1).
      Source sequence(s)
      AC132406
      Consensus CDS
      CCDS23216.1
      UniProtKB/Swiss-Prot
      Q570Z7, Q60520, Q60820, Q62139, Q62140, Q7TPU8, Q7TSZ2
      Related
      ENSMUSP00000130641.2, ENSMUST00000167715.8
      Conserved Domains (1) summary
      COG5602
      Location:81214
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
    3. NM_001357754.2NP_001344683.1  paired amphipathic helix protein Sin3a isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1, 3, and 4 all encode the same isoform (1).
      Source sequence(s)
      AC132406
      Consensus CDS
      CCDS23216.1
      UniProtKB/Swiss-Prot
      Q570Z7, Q60520, Q60820, Q62139, Q62140, Q7TPU8, Q7TSZ2
      Conserved Domains (1) summary
      COG5602
      Location:81214
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
    4. NM_001420196.1NP_001407125.1  paired amphipathic helix protein Sin3a isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC132406
    5. NM_001420197.1NP_001407126.1  paired amphipathic helix protein Sin3a isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC132406
    6. NM_001420198.1NP_001407127.1  paired amphipathic helix protein Sin3a isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC132406
    7. NM_001420199.1NP_001407128.1  paired amphipathic helix protein Sin3a isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC132406
      UniProtKB/Swiss-Prot
      Q570Z7, Q60520, Q60820, Q62139, Q62140, Q7TPU8, Q7TSZ2
    8. NM_001420200.1NP_001407129.1  paired amphipathic helix protein Sin3a isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC132406
      UniProtKB/Swiss-Prot
      Q570Z7, Q60520, Q60820, Q62139, Q62140, Q7TPU8, Q7TSZ2
      Related
      ENSMUSP00000045044.6, ENSMUST00000049169.6
    9. NM_011378.3NP_035508.2  paired amphipathic helix protein Sin3a isoform 1

      See identical proteins and their annotated locations for NP_035508.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript but encodes the shorter isoform (1). Variants 1, 3, and 4 all encode the same isoform (1).
      Source sequence(s)
      AC132406
      Consensus CDS
      CCDS23216.1
      UniProtKB/Swiss-Prot
      Q570Z7, Q60520, Q60820, Q62139, Q62140, Q7TPU8, Q7TSZ2
      Related
      ENSMUSP00000126601.2, ENSMUST00000168678.8
      Conserved Domains (1) summary
      COG5602
      Location:81214
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]

    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_000075.7 Reference GRCm39 C57BL/6J

      Range
      56979271..57035652
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011242683.3XP_011240985.1  paired amphipathic helix protein Sin3a isoform X1

      See identical proteins and their annotated locations for XP_011240985.1

      UniProtKB/Swiss-Prot
      Q60520
      Related
      ENSMUSP00000128956.2, ENSMUST00000168502.8
      Conserved Domains (1) summary
      COG5602
      Location:81217
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
    2. XM_006510893.4XP_006510956.1  paired amphipathic helix protein Sin3a isoform X1

      See identical proteins and their annotated locations for XP_006510956.1

      UniProtKB/Swiss-Prot
      Q60520
      Conserved Domains (1) summary
      COG5602
      Location:81217
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
    3. XM_030244150.1XP_030100010.1  paired amphipathic helix protein Sin3a isoform X2

      UniProtKB/Swiss-Prot
      Q570Z7, Q60520, Q60820, Q62139, Q62140, Q7TPU8, Q7TSZ2
      Conserved Domains (1) summary
      COG5602
      Location:81214
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
    4. XM_011242685.4XP_011240987.1  paired amphipathic helix protein Sin3a isoform X1

      See identical proteins and their annotated locations for XP_011240987.1

      UniProtKB/Swiss-Prot
      Q60520
      Conserved Domains (1) summary
      COG5602
      Location:81217
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
    5. XM_036154746.1XP_036010639.1  paired amphipathic helix protein Sin3a isoform X2

      UniProtKB/Swiss-Prot
      Q570Z7, Q60520, Q60820, Q62139, Q62140, Q7TPU8, Q7TSZ2
      Conserved Domains (1) summary
      COG5602
      Location:81214
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
    6. XM_011242684.4XP_011240986.1  paired amphipathic helix protein Sin3a isoform X1

      See identical proteins and their annotated locations for XP_011240986.1

      UniProtKB/Swiss-Prot
      Q60520
      Conserved Domains (1) summary
      COG5602
      Location:81217
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
    7. XM_006510892.5XP_006510955.1  paired amphipathic helix protein Sin3a isoform X1

      See identical proteins and their annotated locations for XP_006510955.1

      UniProtKB/Swiss-Prot
      Q60520
      Conserved Domains (1) summary
      COG5602
      Location:81217
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]