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Aliases for SAFB2 Gene

Aliases for SAFB2 Gene

  • Scaffold Attachment Factor B2 2 3 3 5
  • KIAA0138 4
  • SAF-B2 4

External Ids for SAFB2 Gene

Previous GeneCards Identifiers for SAFB2 Gene

  • GC19M005527
  • GC19M005538
  • GC19M005348

Summaries for SAFB2 Gene

Entrez Gene Summary for SAFB2 Gene

  • The protein encoded by this gene, along with its paralog (scaffold attachment factor B1), is a repressor of estrogen receptor alpha. The encoded protein binds scaffold/matrix attachment region (S/MAR) DNA and is involved in cell cycle regulation, apoptosis, differentiation, the stress response, and regulation of immune genes. [provided by RefSeq, May 2016]

GeneCards Summary for SAFB2 Gene

SAFB2 (Scaffold Attachment Factor B2) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and identical protein binding. An important paralog of this gene is SAFB.

UniProtKB/Swiss-Prot for SAFB2 Gene

  • Binds to scaffold/matrix attachment region (S/MAR) DNA. Can function as an estrogen receptor corepressor and can also inhibit cell proliferation.

Gene Wiki entry for SAFB2 Gene

Additional gene information for SAFB2 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SAFB2 Gene

Genomics for SAFB2 Gene

GeneHancer (GH) Regulatory Elements for SAFB2 Gene

Promoters and enhancers for SAFB2 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
GH19J005620 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 671.1 +0.7 658 6 HDGF PKNOX1 SMAD1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 POLR2B SAFB2 SAFB RPL36 KHSRP DUS3L KDM4B DPP9-AS1 C19orf70 HSD11B1L GTF2F1
GH19J006527 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 121.1 -906.6 -906598 6.2 YBX1 IRF4 E2F8 ZNF143 ZNF548 MCM3 SP3 MEF2D ZNF610 GLIS1 TNFSF9 ZNF557 KHSRP DUS3L SAFB SAFB2 SNRPEP4 ENSG00000267571 RANBP3 GTF2F1
GH19J005689 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 73.1 -68.1 -68056 5 ZFP64 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 ZNF548 SP3 ZC3H11A RPL36 DUS3L KHSRP SAFB ENSG00000267571 SNRPEP4 SAFB2 VMAC RANBP3 KDM4B
GH19J004721 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 48.3 +899.9 899943 4.5 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 ZNF548 SP3 NFYC ZFP41 DPP9 GC19M004737 LOC105372250 GC19P004751 TRG-TCC1-1 TRV-CAC3-1 SAFB APBA3 YJU2 ENSG00000267030
GH19J004907 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 26.8 +711.4 711363 9.5 HDGF PKNOX1 FOXA2 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF766 E2F8 UHRF1 ENSG00000267030 SAFB SAFB2 YJU2 ENSG00000267769 DUS3L KDM4B DPP9-AS1 PLIN3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SAFB2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SAFB2 gene promoter:
  • Sp1
  • CUTL1
  • Pax-2a
  • Pax-2
  • Zic3
  • Pax-5
  • ZID
  • HSF2

Genomic Locations for SAFB2 Gene

Genomic Locations for SAFB2 Gene
chr19:5,586,993-5,624,046
(GRCh38/hg38)
Size:
37,054 bases
Orientation:
Minus strand
chr19:5,587,010-5,624,057
(GRCh37/hg19)
Size:
37,048 bases
Orientation:
Minus strand

Genomic View for SAFB2 Gene

Genes around SAFB2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SAFB2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SAFB2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SAFB2 Gene

Proteins for SAFB2 Gene

  • Protein details for SAFB2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q14151-SAFB2_HUMAN
    Recommended name:
    Scaffold attachment factor B2
    Protein Accession:
    Q14151
    Secondary Accessions:
    • B4DKG3
    • Q8TB13

    Protein attributes for SAFB2 Gene

    Size:
    953 amino acids
    Molecular mass:
    107473 Da
    Quaternary structure:
    • Interacts with SAFB/SAFB1 and SCAM1. Interacts with isoform 2 SRPK1 and inhibits its activity.
    SequenceCaution:
    • Sequence=BAA09487.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for SAFB2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SAFB2 Gene

Post-translational modifications for SAFB2 Gene

  • Ubiquitination at isoforms=616
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SAFB2 Gene

Domains & Families for SAFB2 Gene

Gene Families for SAFB2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for SAFB2 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SAFB2: view

No data available for UniProtKB/Swiss-Prot for SAFB2 Gene

Function for SAFB2 Gene

Molecular function for SAFB2 Gene

UniProtKB/Swiss-Prot Function:
Binds to scaffold/matrix attachment region (S/MAR) DNA. Can function as an estrogen receptor corepressor and can also inhibit cell proliferation.

Phenotypes From GWAS Catalog for SAFB2 Gene

Gene Ontology (GO) - Molecular Function for SAFB2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003690 double-stranded DNA binding IBA --
GO:0003723 RNA binding HDA,IEA 22658674
GO:0005515 protein binding IPI 12660241
GO:0042802 identical protein binding IPI 19674106
genes like me logo Genes that share ontologies with SAFB2: view
genes like me logo Genes that share phenotypes with SAFB2: view

Animal Models for SAFB2 Gene

MGI Knock Outs for SAFB2:

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for SAFB2 Gene

Localization for SAFB2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SAFB2 Gene

Cytoplasm. 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 SAFB2 gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear bodies (3)
  • Nucleoplasm (3)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SAFB2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA --
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IEA --
GO:0016604 nuclear body IDA --
GO:0043231 intracellular membrane-bounded organelle IDA --
genes like me logo Genes that share ontologies with SAFB2: view

Pathways & Interactions for SAFB2 Gene

SuperPathways for SAFB2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SAFB2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006357 regulation of transcription by RNA polymerase II IBA --
GO:0050684 regulation of mRNA processing IBA,IEA --
GO:0060008 Sertoli cell differentiation IEA --
genes like me logo Genes that share ontologies with SAFB2: view

No data available for Pathways by source and SIGNOR curated interactions for SAFB2 Gene

Drugs & Compounds for SAFB2 Gene

No Compound Related Data Available

Transcripts for SAFB2 Gene

Unigene Clusters for SAFB2 Gene

Scaffold attachment factor B2:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SAFB2 Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14a · 14b ^ 15 ^ 16 ^ 17 ^ 18a · 18b · 18c ^ 19 ^ 20a ·
SP1:
SP2: - -
SP3:
SP4:
SP5:
SP6:
SP7:
SP8: -

ExUns: 20b ^ 21
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:

Relevant External Links for SAFB2 Gene

GeneLoc Exon Structure for
SAFB2
ECgene alternative splicing isoforms for
SAFB2

Expression for SAFB2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SAFB2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SAFB2 Gene

This gene is overexpressed in Lavage (10.8), CD8 Tcells (9.0), Testis (8.5), and Peripheral blood mononuclear cells (6.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SAFB2 Gene



Protein tissue co-expression partners for SAFB2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SAFB2 Gene:

SAFB2

SOURCE GeneReport for Unigene cluster for SAFB2 Gene:

Hs.655392

mRNA Expression by UniProt/SwissProt for SAFB2 Gene:

Q14151-SAFB2_HUMAN
Tissue specificity: Expressed at high levels in the CNS and at low levels in the liver. Expressed in a wide number of breast cancer cell lines.

Evidence on tissue expression from TISSUES for SAFB2 Gene

  • Nervous system(4.8)
  • Bone marrow(4.3)
  • Liver(4.3)
  • Pancreas(4.2)
  • Blood(4.1)
genes like me logo Genes that share expression patterns with SAFB2: view

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for SAFB2 Gene

Orthologs for SAFB2 Gene

This gene was present in the common ancestor of animals.

Orthologs for SAFB2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SAFB2 34 33
  • 99.58 (n)
OneToOne
dog
(Canis familiaris)
Mammalia SAFB2 34 33
  • 88.31 (n)
OneToOne
cow
(Bos Taurus)
Mammalia SAFB2 34 33
  • 85.57 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Safb2 16 34 33
  • 77.17 (n)
rat
(Rattus norvegicus)
Mammalia Safb2 33
  • 75.69 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 73 (a)
ManyToMany
-- 34
  • 63 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 51 (a)
ManyToMany
-- 34
  • 50 (a)
ManyToMany
chicken
(Gallus gallus)
Aves -- 34
  • 63 (a)
ManyToMany
-- 34
  • 59 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 51 (a)
ManyToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.14461 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.5490 33
zebrafish
(Danio rerio)
Actinopterygii safb 34
  • 47 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Saf-B 34
  • 23 (a)
OneToMany
Species where no ortholog for SAFB2 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 SAFB2 Gene

ENSEMBL:
Gene Tree for SAFB2 (if available)
TreeFam:
Gene Tree for SAFB2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SAFB2: view image

Paralogs for SAFB2 Gene

Paralogs for SAFB2 Gene

(2) SIMAP similar genes for SAFB2 Gene using alignment to 5 proteins:

  • SAFB2_HUMAN
  • A0PJ47_HUMAN
  • B4DKG3_HUMAN
  • K7EQU4_HUMAN
  • K7ERX3_HUMAN
genes like me logo Genes that share paralogs with SAFB2: view

Variants for SAFB2 Gene

Sequence variations from dbSNP and Humsavar for SAFB2 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs193920906 uncertain-significance, Malignant tumor of prostate 5,604,866(-) G/A coding_sequence_variant, missense_variant
rs1000080546 -- 5,598,571(-) C/T intron_variant
rs1000187445 -- 5,601,744(-) AAGAAG/AAG intron_variant
rs1000282044 -- 5,607,215(-) C/T intron_variant
rs1000333940 -- 5,607,419(-) A/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SAFB2 Gene

Variant ID Type Subtype PubMed ID
esv3583212 CNV loss 25503493
nsv1062851 CNV gain 25217958
nsv2395 CNV insertion 18451855

Variation tolerance for SAFB2 Gene

Residual Variation Intolerance Score: 10.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.57; 44.63% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SAFB2 Gene

Human Gene Mutation Database (HGMD)
SAFB2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SAFB2

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SAFB2 Gene

Disorders for SAFB2 Gene

Additional Disease Information for SAFB2

No disorders were found for SAFB2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SAFB2 Gene

Publications for SAFB2 Gene

  1. SAFB2, a new scaffold attachment factor homolog and estrogen receptor corepressor. (PMID: 12660241) Townson SM … Oesterreich S (The Journal of biological chemistry 2003) 2 3 4 22 58
  2. Low SAFB levels are associated with worse outcome in breast cancer patients. (PMID: 19137425) Hammerich-Hille S … Oesterreich S (Breast cancer research and treatment 2010) 3 22 58
  3. SAFB1 mediates repression of immune regulators and apoptotic genes in breast cancer cells. (PMID: 19901029) Hammerich-Hille S … Oesterreich S (The Journal of biological chemistry 2010) 3 22 58
  4. The enzymatic activity of SR protein kinases 1 and 1a is negatively affected by interaction with scaffold attachment factors B1 and 2. (PMID: 19674106) Tsianou D … Georgatsou E (The FEBS journal 2009) 3 4 58
  5. No germline mutations in supposed tumour suppressor genes SAFB1 and SAFB2 in familial breast cancer with linkage to 19p. (PMID: 19077293) Bergman A … Nordling M (BMC medical genetics 2008) 3 22 58

Products for SAFB2 Gene

Sources for SAFB2 Gene

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