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Aliases for SINHCAF Gene

Aliases for SINHCAF Gene

  • SIN3-HDAC Complex Associated Factor 2 3 5
  • Tera Protein Homolog 3 4
  • Protein FAM60A 3 4
  • C12orf14 3 4
  • FAM60A 3 4
  • Family With Sequence Similarity 60, Member A 2
  • Family With Sequence Similarity 60 Member A 3
  • SIN3-HDAC Complex-Associated Factor 3
  • Chromosome 12 Open Reading Frame 14 2
  • TERA 3
  • 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 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 , fRNAdb sequence ontologies and piRNA Summary for SINHCAF Gene

Genomics for SINHCAF Gene

GeneHancer (GH) Regulatory Elements for SINHCAF Gene

Promoters and enhancers for SINHCAF Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH12J031316 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 673.1 +5.0 5003 10.8 HDGF PKNOX1 FOXA2 SMAD1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 SINHCAF IPO8 DDX11 FLJ13224 KIAA1551 LOC100422352 H3F3C DENND5B-AS1 DENND5B RNU5F-4P
GH12J031726 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 22.9 -401.4 -401419 3.9 HDGF PKNOX1 CLOCK SMAD1 MLX ARNT ZFP64 ARID4B SIN3A DMAP1 ENSG00000276900 GC12P031730 AMN1 DDX11 LOC100420981 SINHCAF FLJ13224 KIAA1551 DDX11-AS1 CAPRIN2
GH12J031360 Enhancer 0.8 dbSUPER 44.1 -33.7 -33698 0.6 ZFP64 MZF1 FEZF1 ZNF213 KLF7 ZNF202 ZNF680 ZNF654 ZBTB11 ZC3H11A DDX11 IPO8 SINHCAF DDX11-AS1 FLJ13224 ENSG00000256984 BICD1 CAPRIN2 RNU6-618P DENND5B-AS1
GH12J031072 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 13.6 +253.2 253185 2.3 HDGF PKNOX1 FOXA2 ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B DDX11 DDX11-AS1 SINHCAF FLJ13224 KIAA1551 IPO8 ENSG00000212533 GC12M031076
GH12J031658 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 13.6 -332.4 -332384 2.2 HDGF PKNOX1 SMAD1 ARNT ARID4B SIN3A ZNF2 YY1 POLR2B ZNF213 ETFBKMT KIAA1551 DDX11 SINHCAF FLJ13224 IPO8 AK4P3 DSPA2D GC12P031714
- 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 UCSC Golden Path with GeneCards custom track

Genomic Locations for SINHCAF Gene

Genomic Locations for SINHCAF Gene
chr12:31,280,422-31,327,058
(GRCh38/hg38)
Size:
46,637 bases
Orientation:
Minus strand
chr12:31,433,518-31,479,992
(GRCh37/hg19)
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 StructureGene Density

RefSeq DNA sequence for SINHCAF Gene

Proteins for SINHCAF Gene

  • 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

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

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

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

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

Animal Model Products

miRNA for SINHCAF Gene

miRTarBase miRNAs that target SINHCAF

Clone Products

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

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 3
extracellular 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

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 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

No Compound Related Data Available

Transcripts for SINHCAF Gene

Clone Products

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

No ASD Table

Relevant External Links for SINHCAF Gene

GeneLoc Exon Structure for
SINHCAF
ECgene alternative splicing isoforms for
SINHCAF

Expression for SINHCAF Gene

NURSA nuclear receptor signaling pathways regulating expression of SINHCAF Gene:

SINHCAF

Evidence on tissue expression from TISSUES for SINHCAF Gene

  • Lung(4.6)
  • Bone marrow(4.2)
  • Nervous system(2.5)
No Expression Related Data Available

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 33
  • 99.7 (n)
dog
(Canis familiaris)
Mammalia FAM60A 34 33
  • 96.08 (n)
OneToOne
cow
(Bos Taurus)
Mammalia FAM60A 34 33
  • 95.32 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Fam60a 34 33
  • 92.61 (n)
OneToOne
Sinhcaf 16
rat
(Rattus norvegicus)
Mammalia Fam60a 33
  • 90.5 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia FAM60A 34
  • 62 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia FAM60A 34
  • 39 (a)
OneToOne
chicken
(Gallus gallus)
Aves FAM60A 34 33
  • 83.64 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia FAM60A 34
  • 89 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100497969 33
  • 66.19 (n)
Str.11785 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.6697 33
zebrafish
(Danio rerio)
Actinopterygii fam60a 34 33
  • 73.78 (n)
OneToOne
zgc66459 33
fruit fly
(Drosophila melanogaster)
Insecta CG4068 34
  • 16 (a)
OneToOne
Species where no ortholog for SINHCAF was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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 squirt (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

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 from dbSNP and Humsavar for SINHCAF Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000025004 -- 31,296,187(-) A/G intron_variant
rs1000163207 -- 31,310,976(-) T/A intron_variant
rs1000200274 -- 31,280,324(-) C/T downstream_transcript_variant
rs1000228297 -- 31,302,398(-) T/A intron_variant
rs1000272261 -- 31,282,924(-) T/C intron_variant

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

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. 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 58
  2. 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 58
  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 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  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 58

Products for SINHCAF Gene

Sources for SINHCAF Gene

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