SINHCAF Gene (Protein Coding)

SIN3-HDAC Complex Associated Factor

GC12M031283
GIFtS:
26
See more...

Aliases for SINHCAF Gene

Aliases for SINHCAF Gene

  • SIN3-HDAC Complex Associated Factor 2 3 5
  • SIN3-HDAC Complex-Associated Factor 3 4
  • Tera Protein Homolog 3 4
  • Protein FAM60A 3 4
  • C12orf14 3 4
  • FAM60A 3 4
  • TERA 2 3
  • Family With Sequence Similarity 60, Member A 2
  • Family With Sequence Similarity 60 Member A 3
  • Chromosome 12 Open Reading Frame 14 2
  • SINHCAF 5
  • L4 3

External Ids for SINHCAF Gene

Previous HGNC Symbols for SINHCAF Gene

  • C12orf14
  • FAM60A

Summaries for SINHCAF Gene

GeneCards Summary for SINHCAF Gene

SINHCAF (SIN3-HDAC Complex Associated Factor) is a Protein Coding gene.

UniProtKB/Swiss-Prot Summary for SINHCAF Gene

  • Subunit of the Sin3 deacetylase complex (Sin3/HDAC), this subunit is important for the repression of genes encoding components of the TGF-beta signaling pathway (PubMed:22865885, PubMed:22984288). Core component of a SIN3A complex (composed of at least SINHCAF, SIN3A, HDAC1, SAP30, RBBP4, OGT and TET1) present in embryonic stem (ES) cells. Promotes the stability of SIN3A and its presence on chromatin and is essential for maintaining the potential of ES cells to proliferate rapidly, while ensuring a short G1-phase of the cell cycle, thereby preventing premature lineage priming (By similarity).

Gene Wiki entry for SINHCAF Gene

Additional gene information for SINHCAF Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SINHCAF Gene

Genomics for SINHCAF Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for SINHCAF Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SINHCAF on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SINHCAF

Genomic Locations for SINHCAF Gene

Latest Assembly
chr12:31,280,584-31,327,058
(GRCh38/hg38)
Size:
46,475 bases
Orientation:
Minus strand

Previous Assembly
chr12:31,433,518-31,479,084
(GRCh37/hg19 by Entrez Gene)
Size:
45,567 bases
Orientation:
Minus strand

chr12:31,433,518-31,479,992
(GRCh37/hg19 by Ensembl)
Size:
46,475 bases
Orientation:
Minus strand

Genomic View for SINHCAF Gene

Genes around SINHCAF on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SINHCAF Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SINHCAF Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for SINHCAF Gene

Proteins for SINHCAF Gene

Products:

  1. Antibodies for research
  2. Protein products for research
  3. Assay products for research

  • Protein details for SINHCAF Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NP50-SHCAF_HUMAN
    Recommended name:
    SIN3-HDAC complex-associated factor
    Protein Accession:
    Q9NP50
    Secondary Accessions:
    • D3DUV8
    • Q9BSZ8

    Protein attributes for SINHCAF Gene

    Size:
    221 amino acids
    Molecular mass:
    24852 Da
    Quaternary structure:
    • Interacts with the Sin3/HDAC corepressor complex at least composed of BRMS1, BRMS1L, ING2, SAP30, SAP30L and HDAC1 (PubMed:22865885, PubMed:22984288). Found in a complex composed of at least SINHCAF, SIN3A, HDAC1, SAP30, RBBP4, OGT and TET1. Interacts with SIN3A and OGT (By similarity).

    Alternative splice isoforms for SINHCAF Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SINHCAF Gene

Post-translational modifications for SINHCAF Gene

  • Ubiquitination at Lys168, Lys171, Lys179, and Lys200
  • Modification sites at PhosphoSitePlus

Other Protein References for SINHCAF Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SINHCAF Gene

Domains & Families for SINHCAF Gene

Gene Families for SINHCAF Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SINHCAF Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SINHCAF Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ55197, highly similar to Protein FAM60A (B7Z287_HUMAN)
  • Tera protein homolog (FA60A_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9NP50

UniProtKB/Swiss-Prot:

SHCAF_HUMAN :
  • Belongs to the SINHCAF family.
Family:
  • Belongs to the SINHCAF family.
genes like me logo Genes that share domains with SINHCAF: view

Function for SINHCAF Gene

Products:

  1. Animal Models for research
  2. CRISPR products for research
  3. miRNA products for research
  4. Inhibitory RNAs for research
  5. Clone products for research
  6. Cell Lines for research

Molecular function for SINHCAF Gene

UniProtKB/Swiss-Prot Function:
Subunit of the Sin3 deacetylase complex (Sin3/HDAC), this subunit is important for the repression of genes encoding components of the TGF-beta signaling pathway (PubMed:22865885, PubMed:22984288). Core component of a SIN3A complex (composed of at least SINHCAF, SIN3A, HDAC1, SAP30, RBBP4, OGT and TET1) present in embryonic stem (ES) cells. Promotes the stability of SIN3A and its presence on chromatin and is essential for maintaining the potential of ES cells to proliferate rapidly, while ensuring a short G1-phase of the cell cycle, thereby preventing premature lineage priming (By similarity).
UniProtKB/Swiss-Prot Induction:
Peaks during G1 and S phases of the cell cycle in U2OS cells. Up-regulated in squamous cell carcinoma (SCC), adenocarcinoma (AC), colon, ovary, rectum and stomach tumors.

Phenotypes From GWAS Catalog for SINHCAF Gene

Gene Ontology (GO) - Molecular Function for SINHCAF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 23752268
genes like me logo Genes that share ontologies with SINHCAF: view
genes like me logo Genes that share phenotypes with SINHCAF: view

miRNA for SINHCAF Gene

miRTarBase miRNAs that target SINHCAF

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SINHCAF

Clone products for research

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SINHCAF Gene

Localization for SINHCAF Gene

Subcellular locations from UniProtKB/Swiss-Prot for SINHCAF Gene

Nucleus.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SINHCAF gene
Compartment Confidence
nucleus 5
cytosol 2
extracellular 1
cytoskeleton 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SINHCAF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0016580 Sin3 complex IDA 22984288
genes like me logo Genes that share ontologies with SINHCAF: view

Pathways & Interactions for SINHCAF Gene

PathCards logo

SuperPathways for SINHCAF Gene

No Data Available

Gene Ontology (GO) - Biological Process for SINHCAF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008284 positive regulation of cell proliferation ISS --
GO:0030336 negative regulation of cell migration IBA,IMP 22984288
GO:0045596 negative regulation of cell differentiation ISS --
genes like me logo Genes that share ontologies with SINHCAF: view

No data available for Pathways by source and SIGNOR curated interactions for SINHCAF Gene

Drugs & Compounds for SINHCAF Gene

Products:

  1. Drug products for research
No Compound Related Data Available

Transcripts for SINHCAF Gene

Products:

  1. CRISPR products for research
  2. miRNA products for research
  3. Inhibitory RNAs for research
  4. Clone products for research

mRNA/cDNA for SINHCAF Gene

3 REFSEQ mRNAs :
13 NCBI additional mRNA sequence :
9 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SINHCAF

Clone products for research

Alternative Splicing Database (ASD) splice patterns (SP) for SINHCAF Gene

No ASD Table

Relevant External Links for SINHCAF Gene

GeneLoc Exon Structure for
SINHCAF

Expression for SINHCAF Gene

Products:

  1. Primer products for research

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SINHCAF

Evidence on tissue expression from TISSUES for SINHCAF Gene

  • Lung(4.6)
  • Bone marrow(4.2)
  • Nervous system(2.9)
No Expression Related Data Available

Primer products for research

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SINHCAF Gene

Orthologs for SINHCAF Gene

This gene was present in the common ancestor of animals.

Orthologs for SINHCAF Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia FAM60A 30
  • 99.7 (n)
Dog
(Canis familiaris)
 Mammalia FAM60A 30 31
  • 96.08 (n)
 OneToOne
Cow
(Bos Taurus)
 Mammalia FAM60A 30 31
  • 95.32 (n)
 OneToOne
Mouse
(Mus musculus)
 Mammalia Fam60a 30 31
  • 92.61 (n)
 OneToOne
Sinhcaf 17
Rat
(Rattus norvegicus)
 Mammalia Fam60a 30
  • 90.5 (n)
Platypus
(Ornithorhynchus anatinus)
 Mammalia FAM60A 31
  • 62 (a)
 OneToOne
Oppossum
(Monodelphis domestica)
 Mammalia FAM60A 31
  • 39 (a)
 OneToOne
Chicken
(Gallus gallus)
 Aves FAM60A 30 31
  • 83.64 (n)
 OneToOne
Lizard
(Anolis carolinensis)
 Reptilia FAM60A 31
  • 89 (a)
 OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
 Amphibia LOC100497969 30
  • 66.19 (n)
Str.11785 30
African clawed frog
(Xenopus laevis)
 Amphibia Xl.6697 30
Zebrafish
(Danio rerio)
 Actinopterygii fam60a 30 31
  • 73.78 (n)
 OneToOne
zgc66459 30
Fruit Fly
(Drosophila melanogaster)
 Insecta CG4068 31
  • 16 (a)
 OneToOne
Species where no ortholog for SINHCAF was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for SINHCAF Gene

ENSEMBL:
Gene Tree for SINHCAF (if available)
TreeFam:
Gene Tree for SINHCAF (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SINHCAF: view image

Paralogs for SINHCAF Gene

Pseudogenes.org Pseudogenes for SINHCAF Gene

genes like me logo Genes that share paralogs with SINHCAF: view

No data available for Paralogs for SINHCAF Gene

Variants for SINHCAF Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SINHCAF Gene

SNP ID Clinical significance and condition Chr 12 pos Variation AA Info Type
rs2304459 - p.Arg117His

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SINHCAF Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for SINHCAF Gene

Variant ID Type Subtype PubMed ID
dgv63e55 CNV gain 17911159
esv2422447 CNV duplication 17116639
esv2751043 CNV gain 17911159
esv2751046 CNV gain 17911159
esv2759890 CNV gain+loss 17122850
nsv1045497 CNV gain 25217958
nsv428276 CNV gain 18775914
nsv515974 CNV gain+loss 19592680
nsv524737 CNV gain 19592680
nsv661 CNV insertion 18451855
nsv832364 CNV loss 17160897
nsv973050 CNV duplication 23825009

Variation tolerance for SINHCAF Gene

Residual Variation Intolerance Score: 47.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.86; 17.89% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SINHCAF Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SINHCAF

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SINHCAF Gene

Disorders for SINHCAF Gene

Additional Disease Information for SINHCAF

Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform

No disorders were found for SINHCAF Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SINHCAF Gene

Publications for SINHCAF Gene

  1. Human family with sequence similarity 60 member A (FAM60A) protein: a new subunit of the Sin3 deacetylase complex. (PMID: 22984288) Smith KT … Workman JL (Molecular & cellular proteomics : MCP 2012) 2 3 4
  2. Family with sequence similarity 60A (FAM60A) protein is a cell cycle-fluctuating regulator of the SIN3-HDAC1 histone deacetylase complex. (PMID: 22865885) Muñoz IM … Rouse J (The Journal of biological chemistry 2012) 2 3 4
  3. Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells. (PMID: 11042152) Zhang QH … Chen Z (Genome research 2000) 2 3 4
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4

ExternalLinks

View latest publications for SINHCAF gene in Mastermind

Products for SINHCAF Gene

Sources for SINHCAF Gene