U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    Sinhcaf SIN3-HDAC complex associated factor [ Mus musculus (house mouse) ]

    Gene ID: 56306, updated on 2-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Sinhcafprovided by MGI
    Official Full Name
    SIN3-HDAC complex associated factorprovided by MGI
    Primary source
    MGI:MGI:1929091
    See related
    Ensembl:ENSMUSG00000039985 AllianceGenome:MGI:1929091
    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
    Tera; Ppcs1; Fam60a; Pptcs1
    Summary
    Involved in negative regulation of cell differentiation and positive regulation of cell population proliferation. Predicted to be part of Sin3-type complex. Is expressed in several structures, including central nervous system; early embryo; gut; heart; and lung. Orthologous to human SINHCAF (SIN3-HDAC complex associated factor). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in CNS E11.5 (RPKM 31.1), CNS E14 (RPKM 11.8) and 12 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Sinhcaf in Genome Data Viewer
    Location:
    6 G3; 6 78.67 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (148822538..148847968, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (148921057..148946470, complement)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene caprin family member 2 Neighboring gene predicted gene, 36762 Neighboring gene STARR-seq mESC enhancer starr_17840 Neighboring gene ribosomal protein S29 pseudogene Neighboring gene STARR-seq mESC enhancer starr_17845 Neighboring gene RIKEN cDNA 3010003L21 gene Neighboring gene STARR-positive B cell enhancer ABC_E4884 Neighboring gene STARR-seq mESC enhancer starr_17846 Neighboring gene predicted gene, 25539 Neighboring gene STARR-positive B cell enhancer mm9_chr6:148938132-148938433 Neighboring gene STARR-seq mESC enhancer starr_17851 Neighboring gene DENN domain containing 5B Neighboring gene 60S ribosomal protein L27 pseudogene

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Mouse ENCODE transcriptome data 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Identification of putative downstream genes of Oct-3, a pluripotent cell-specific transcription factor. Saijoh Y, et al. Genes Cells, 1996 Feb. PMID 9140067
    2. Loss of Fam60a, a Sin3a subunit, results in embryonic lethality and is associated with aberrant methylation at a subset of gene promoters. Nabeshima R, et al. Elife, 2018 Aug 2. PMID 30070635, Free PMC Article
    3. Functional gene screening in embryonic stem cells implicates Wnt antagonism in neural differentiation. Aubert J, et al. Nat Biotechnol, 2002 Dec. PMID 12447396
    4. Stage-specific changes in gene expression in acutely isolated mouse CNS progenitor cells. Abramova N, et al. Dev Biol, 2005 Jul 15. PMID 15890332
    5. Fam60a defines a variant Sin3a-Hdac complex in embryonic stem cells required for self-renewal. Streubel G, et al. EMBO J, 2017 Aug 1. PMID 28554894, Free PMC Article

    See all (32) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (3)  1 citation

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of cell migration ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of cell migration NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    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 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 
    involved_in positive regulation of cell population proliferation 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 
    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 Sin3-type complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of Sin3-type complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    located_in nucleus NAS
    Non-traceable Author Statement
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    SIN3-HDAC complex-associated factor
    Names
    family with sequence similarity 60, member A
    pluripotent cell-specific 1
    protein FAM60A
    teratocarcinoma expressed, serine rich

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001355645.2 → NP_001342574.1  SIN3-HDAC complex-associated factor isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC140327
      Consensus CDS
      CCDS20713.1
      UniProtKB/Swiss-Prot
      P70361, Q3TLD2, Q8C8M1
      Related
      ENSMUSP00000107188.2, ENSMUST00000081956.12
      Conserved Domains (1) summary
      pfam15396
      Location:2 → 198
      FAM60A; Protein Family FAM60A

    2. NM_001361398.2 → NP_001348327.1  SIN3-HDAC complex-associated factor isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC140327
      Conserved Domains (1) summary
      pfam15396
      Location:2 → 96
      FAM60A; Protein Family FAM60A

    3. NM_001411256.1 → NP_001398185.1  SIN3-HDAC complex-associated factor isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC140327
      UniProtKB/Swiss-Prot
      P70361, Q3TLD2, Q8C8M1
      Related
      ENSMUSP00000107187.2, ENSMUST00000111562.8

    4. NM_001411257.1 → NP_001398186.1  SIN3-HDAC complex-associated factor isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC140327
      UniProtKB/Swiss-Prot
      P70361, Q3TLD2, Q8C8M1

    5. NM_001411258.1 → NP_001398187.1  SIN3-HDAC complex-associated factor isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC140327
      UniProtKB/Swiss-Prot
      P70361, Q3TLD2, Q8C8M1

    6. NM_001411259.1 → NP_001398188.1  SIN3-HDAC complex-associated factor isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC140327
      UniProtKB/Swiss-Prot
      P70361, Q3TLD2, Q8C8M1

    7. NM_001411260.1 → NP_001398189.1  SIN3-HDAC complex-associated factor isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC140327
      UniProtKB/Swiss-Prot
      P70361, Q3TLD2, Q8C8M1

    8. NM_001411261.1 → NP_001398190.1  SIN3-HDAC complex-associated factor isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC140327
      UniProtKB/Swiss-Prot
      P70361, Q3TLD2, Q8C8M1

    9. NM_001411262.1 → NP_001398191.1  SIN3-HDAC complex-associated factor isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC140327
      UniProtKB/Swiss-Prot
      P70361, Q3TLD2, Q8C8M1

    10. NM_001411263.1 → NP_001398192.1  SIN3-HDAC complex-associated factor isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC140327

    11. NM_001411264.1 → NP_001398193.1  SIN3-HDAC complex-associated factor isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC140327

    12. NM_001411265.1 → NP_001398194.1  SIN3-HDAC complex-associated factor isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC140327

    13. NM_019643.5 → NP_062617.2  SIN3-HDAC complex-associated factor isoform 1

      See identical proteins and their annotated locations for NP_062617.2

      Status: VALIDATED

      Source sequence(s)
      AC140327
      Consensus CDS
      CCDS20713.1
      UniProtKB/Swiss-Prot
      P70361, Q3TLD2, Q8C8M1
      Related
      ENSMUSP00000050952.9, ENSMUST00000054080.15
      Conserved Domains (1) summary
      pfam15396
      Location:2 → 198
      FAM60A; Protein Family FAM60A

    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_000072.7 Reference GRCm39 C57BL/6J

      Range
      148822538..148847968 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8C8M1.1 GenPept UniProtKB/Swiss-Prot:Q8C8M1

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools