Aliases for SIN3B Gene

Aliases for SIN3B Gene

  • SIN3 Transcription Regulator Family Member B 2 3 5
  • Histone Deacetylase Complex Subunit Sin3b 3 4
  • Paired Amphipathic Helix Protein Sin3b 3 4
  • Transcriptional Corepressor Sin3b 3 4
  • KIAA0700 2 4
  • SIN3 Homolog B, Transcription Regulator (Yeast) 2
  • SIN3 Transcription Regulator Homolog B (Yeast) 2
  • SIN3 Homolog B, Transcriptional Regulator 3
  • SIN3 Transcription Regulator Homolog B 3
  • SIN3B 5

External Ids for SIN3B Gene

Previous GeneCards Identifiers for SIN3B Gene

  • GC19P017434
  • GC19P017332
  • GC19P016785
  • GC19P016801
  • GC19P016940
  • GC19P016509

Summaries for SIN3B Gene

GeneCards Summary for SIN3B Gene

SIN3B (SIN3 Transcription Regulator Family Member B) is a Protein Coding gene. Among its related pathways are PEDF Induced Signaling and Signaling events mediated by HDAC Class I. Gene Ontology (GO) annotations related to this gene include chromatin binding. An important paralog of this gene is SIN3A.

UniProtKB/Swiss-Prot Summary for SIN3B Gene

  • Acts as a transcriptional repressor. Interacts with MXI1 to repress MYC responsive genes and antagonize MYC oncogenic activities. Interacts with MAD-MAX heterodimers by binding to MAD. The heterodimer then represses transcription by tethering SIN3B to DNA. Also forms a complex with FOXK1 which represses transcription. With FOXK1, regulates cell cycle progression probably by repressing cell cycle inhibitor genes expression.

Gene Wiki entry for SIN3B Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SIN3B Gene

Genomics for SIN3B Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SIN3B 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 SIN3B on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SIN3B

Top Transcription factor binding sites by QIAGEN in the SIN3B gene promoter:
  • ER-alpha
  • STAT5A

Genomic Locations for SIN3B Gene

Latest Assembly
chr19:16,829,398-16,880,355
(GRCh38/hg38)
Size:
50,958 bases
Orientation:
Plus strand

Previous Assembly
chr19:16,940,209-16,991,160
(GRCh37/hg19 by Entrez Gene)
Size:
50,952 bases
Orientation:
Plus strand

chr19:16,940,211-16,991,164
(GRCh37/hg19 by Ensembl)
Size:
50,954 bases
Orientation:
Plus strand

Genomic View for SIN3B Gene

Genes around SIN3B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SIN3B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SIN3B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SIN3B Gene

Proteins for SIN3B Gene

  • Protein details for SIN3B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75182-SIN3B_HUMAN
    Recommended name:
    Paired amphipathic helix protein Sin3b
    Protein Accession:
    O75182
    Secondary Accessions:
    • Q2NL91
    • Q68GC2
    • Q6P4B8
    • Q8TB34
    • Q9BSC8

    Protein attributes for SIN3B Gene

    Size:
    1162 amino acids
    Molecular mass:
    133066 Da
    Quaternary structure:
    • Interacts with FOXK1/MNF, MXI, MAD, NCOR1 and SAP30. Interaction with SUDS3 enhances the interaction with HDAC1 to form a complex. Interacts with CRY1, HCFC1, MAD3, MAD4, MAEL, REST, RNF220 and SETDB1. Interacts with C6orf89 (PubMed:23460338). Interacts with MYT1L (By similarity).
    SequenceCaution:
    • Sequence=BAA31675.2; Type=Erroneous initiation; Note=Extended N-terminus.; Evidence={ECO:0000305};

    Alternative splice isoforms for SIN3B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SIN3B Gene

Post-translational modifications for SIN3B Gene

  • Ubiquitinated by RNF220 that leads to proteasomal degradation.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SIN3B Gene

Domains & Families for SIN3B Gene

Gene Families for SIN3B Gene

Protein Domains for SIN3B Gene

InterPro:
Blocks:
  • Paired amphipathic helix

Suggested Antigen Peptide Sequences for SIN3B Gene

GenScript: Design optimal peptide antigens:
  • Transcriptional corepressor Sin3b (SIN3B_HUMAN)
genes like me logo Genes that share domains with SIN3B: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SIN3B Gene

Function for SIN3B Gene

Molecular function for SIN3B Gene

UniProtKB/Swiss-Prot Function:
Acts as a transcriptional repressor. Interacts with MXI1 to repress MYC responsive genes and antagonize MYC oncogenic activities. Interacts with MAD-MAX heterodimers by binding to MAD. The heterodimer then represses transcription by tethering SIN3B to DNA. Also forms a complex with FOXK1 which represses transcription. With FOXK1, regulates cell cycle progression probably by repressing cell cycle inhibitor genes expression.

Phenotypes From GWAS Catalog for SIN3B Gene

Gene Ontology (GO) - Molecular Function for SIN3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003682 chromatin binding IEA --
GO:0003714 transcription corepressor activity IEA,IBA 21873635
GO:0004407 histone deacetylase activity IBA --
GO:0005515 protein binding IPI 12670868
genes like me logo Genes that share ontologies with SIN3B: view
genes like me logo Genes that share phenotypes with SIN3B: view

Animal Models for SIN3B Gene

MGI Knock Outs for SIN3B:

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SIN3B

Clone products for research

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SIN3B Gene

Localization for SIN3B Gene

Subcellular locations from UniProtKB/Swiss-Prot for SIN3B 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 SIN3B gene
Compartment Confidence
nucleus 5
plasma membrane 2
cytosol 2
extracellular 1
cytoskeleton 1
mitochondrion 1

Subcellular locations from the

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

Gene Ontology (GO) - Cellular Components for SIN3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000118 histone deacetylase complex IBA 21873635
GO:0000785 chromatin IBA 21873635
GO:0000805 X chromosome IEA --
GO:0000806 Y chromosome IEA --
GO:0001741 XY body IEA --
genes like me logo Genes that share ontologies with SIN3B: view

Pathways & Interactions for SIN3B Gene

genes like me logo Genes that share pathways with SIN3B: view

Pathways by source for SIN3B Gene

1 GeneGo (Thomson Reuters) pathway for SIN3B Gene
  • Transcription Sin3 and NuRD in transcription regulation
6 Qiagen pathways for SIN3B Gene
  • Estrogen Pathway
  • Glucocorticoid Receptor Signaling
  • Macrophage Differentiation and Growth Inhibition by METS
  • Nur77 Signaling in T-Cell
  • Protein Acetylation and Deacetylation

Gene Ontology (GO) - Biological Process for SIN3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription by RNA polymerase II IBA 21873635
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0016575 histone deacetylation IBA 21873635
GO:0019216 regulation of lipid metabolic process TAS --
GO:0045892 negative regulation of transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with SIN3B: view

No data available for SIGNOR curated interactions for SIN3B Gene

Drugs & Compounds for SIN3B Gene

No Compound Related Data Available

Transcripts for SIN3B Gene

mRNA/cDNA for SIN3B Gene

3 REFSEQ mRNAs :
12 NCBI additional mRNA sequence :
12 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 SIN3B

Clone products for research

Alternative Splicing Database (ASD) splice patterns (SP) for SIN3B Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14a · 14b ^ 15a · 15b · 15c ^ 16 ^ 17a · 17b · 17c ^ 18a · 18b ^ 19 ^
SP1: - - - - - - -
SP2: - - - - - - - -
SP3: - -
SP4: - -
SP5:
SP6:
SP7: -
SP8: -
SP9:
SP10:
SP11:
SP12:

ExUns: 20a · 20b ^ 21 ^ 22 ^ 23a · 23b ^ 24 ^ 25a · 25b · 25c · 25d
SP1: - - -
SP2: - - -
SP3:
SP4:
SP5: - -
SP6: -
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:

Relevant External Links for SIN3B Gene

GeneLoc Exon Structure for
SIN3B

Expression for SIN3B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SIN3B Gene

Protein differential expression in normal tissues from HIPED for SIN3B Gene

This gene is overexpressed in Placenta (18.7), Blymphocyte (15.9), and Peripheral blood mononuclear cells (14.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SIN3B Gene



Protein tissue co-expression partners for SIN3B Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SIN3B

SOURCE GeneReport for Unigene cluster for SIN3B Gene:

Hs.13999

Evidence on tissue expression from TISSUES for SIN3B Gene

  • Nervous system(4.8)
  • Skin(2)
genes like me logo Genes that share expression patterns with SIN3B: view

Primer products for research

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SIN3B Gene

Orthologs for SIN3B Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SIN3B Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SIN3B 29 30
  • 99.24 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia SIN3B 29 30
  • 90.95 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia SIN3B 29 30
  • 90.7 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia SIN3B 30
  • 89 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia SIN3B 30
  • 87 (a)
OneToOne
Mouse
(Mus musculus)
Mammalia Sin3b 29 16 30
  • 85.37 (n)
OneToOne
Chicken
(Gallus gallus)
Aves SIN3B 29 30
  • 77.79 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia SIN3B 30
  • 78 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia sin3b 29
  • 69.74 (n)
Zebrafish
(Danio rerio)
Actinopterygii sin3b 29 30
  • 68.84 (n)
OneToOne
Fruit Fly
(Drosophila melanogaster)
Insecta Sin3A 30
  • 19 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea sin-3 30
  • 12 (a)
OneToMany
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SIN3 30
  • 15 (a)
OneToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.3742 30
  • 33 (a)
OneToMany
Species where no ortholog for SIN3B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • Rat (Rattus norvegicus)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • 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)

Evolution for SIN3B Gene

ENSEMBL:
Gene Tree for SIN3B (if available)
TreeFam:
Gene Tree for SIN3B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SIN3B: view image
Alliance of Genome Resources:
Additional Orthologs for SIN3B

Paralogs for SIN3B Gene

Paralogs for SIN3B Gene

(1) SIMAP similar genes for SIN3B Gene using alignment to 3 proteins:

  • SIN3B_HUMAN
  • M0QYC5_HUMAN
  • M0R271_HUMAN
genes like me logo Genes that share paralogs with SIN3B: view

Variants for SIN3B Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SIN3B Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
rs1408855294 Likely Benign: not provided 16,831,524(+) C/G
NM_001297595.2(SIN3B):c.258C>G (p.Val86=)
SYNONYMOUS
rs143287291 Benign: not provided 16,862,913(+) G/A
NM_001297595.2(SIN3B):c.1266+354G>A
SYNONYMOUS_VARIANT,INTRON
rs144873823 Likely Benign: not provided 16,862,894(+) G/A
NM_015260.4(SIN3B):c.1277G>A (p.Trp426Ter)
NONSENSE,INTRON
rs61754499 Benign: not provided 16,851,481(+) A/G
NM_001297595.2(SIN3B):c.796A>G (p.Ser266Gly)
MISSENSE

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SIN3B 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 SIN3B Gene

Variant ID Type Subtype PubMed ID
esv1088392 CNV deletion 17803354
esv24348 CNV loss 19812545
esv2718267 CNV deletion 23290073
esv2718268 CNV deletion 23290073
esv2718269 CNV deletion 23290073

Variation tolerance for SIN3B Gene

Residual Variation Intolerance Score: 4.25% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.31; 41.30% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SIN3B Gene

Human Gene Mutation Database (HGMD)
SIN3B
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SIN3B
Leiden Open Variation Database (LOVD)
SIN3B

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SIN3B Gene

Disorders for SIN3B Gene

Additional Disease Information for SIN3B

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform

No disorders were found for SIN3B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SIN3B Gene

Publications for SIN3B Gene

  1. Prediction of the coding sequences of unidentified human genes. X. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PMID: 9734811) Ishikawa K … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1998) 2 3 4
  2. C6orf89 encodes three distinct HDAC enhancers that function in the nucleolus, the golgi and the midbody. (PMID: 23460338) Lalioti VS … Sandoval IV (Journal of cellular physiology 2013) 3 4
  3. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 40
  4. The human SIN3B corepressor forms a nucleolar complex with leukemia-associated ETO homologues. (PMID: 18205948) Dhanda RS … Olsson I (BMC molecular biology 2008) 3 22
  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

Products for SIN3B Gene

Sources for SIN3B Gene