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

Gene ID: 56306, updated on 11-Apr-2024

Summary

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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 located in nucleus. Predicted to be part of Sin3 complex. Is expressed in 2-cell stage embryo and 4-cell stage embryo. Orthologous to human SINHCAF (SIN3-HDAC complex associated factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in CNS E11.5 (RPKM 31.1), CNS E14 (RPKM 11.8) and 12 other tissues See more
Orthologs
human all
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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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 (30) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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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 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
  
located_in nucleus NAS
Non-traceable Author Statement
more info
 PubMed 

General protein information

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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)

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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_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

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