Set Analyses:
Advanced Search

Advanced Search

 
Search By
Section (entire)
for


 
or upload a file of gene symbols


Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SAFB Gene

protein-coding   GIFtS: 60
GCID: GC19P005574

Scaffold Attachment Factor B

Microbiology & Infectious Diseases Congress
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Scaffold Attachment Factor B1 2     HSP27 ERE-TATA-Binding Protein2 3
HET2 3 5     HSP27 Estrogen Response Element-TATA Box-Binding Protein2 3
Hsp27 ERE-TATA Binding Protein1 2     SAB-B12
HAP2 3     Glutathione S-Transferase Fusion Protein2
SAF-B2 3     Heat-Shock Protein (HSP27) Estrogen Response Element And TATA Box-Binding
Protein2
SAF-B12 3     Scaffold Attachment Factor B12
SAFB12 3     

External Ids:    HGNC: 105201   Entrez Gene: 62942   Ensembl: ENSG000001606337   OMIM: 6028955   UniProtKB: Q154243   
ORGUL members:         
NONCODE14:n410537      

Export aliases for SAFB gene to outside databases

Previous GC identifers: GC19P005715 GC19P005563 GC19P005384


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for SAFB Gene:
This gene encodes a DNA-binding protein which has high specificity for scaffold or matrix attachment region DNA
elements (S/MAR DNA). This protein is thought to be involved in attaching the base of chromatin loops to the
nuclear matrix but there is conflicting evidence as to whether this protein is a component of chromatin or a
nuclear matrix protein. Scaffold attachment factors are a specific subset of nuclear matrix proteins (NMP) that
specifically bind to S/MAR. The encoded protein is thought to serve as a molecular base to assemble a
'transcriptosome complex' in the vicinity of actively transcribed genes. It is involved in the regulation of heat
shock protein 27 transcription, can act as an estrogen receptor co-repressor and is a candidate for breast
tumorigenesis. This gene is arranged head-to-head with a similar gene whose product has the same functions.
Multiple transcript variants encoding different isoforms have been found for this gene.(provided by RefSeq, Jan
2011)

GeneCards Summary for SAFB Gene: 
SAFB (scaffold attachment factor B) is a protein-coding gene, and is affiliated with the lncRNA class. Diseases associated with SAFB include cysticercosis, and denys-drash syndrome, and among its related super-pathways are Sertoli-Sertoli Cell Junction Dynamics. GO annotations related to this gene include chromatin binding and RNA binding. An important paralog of this gene is SAFB2.

UniProtKB/Swiss-Prot: SAFB1_HUMAN, Q15424
Function: Binds to scaffold/matrix attachment region (S/MAR) DNA and forms a molecular assembly point to allow the
formation of a 'transcriptosomal' complex (consisting of SR proteins and RNA polymerase II) coupling
transcription and RNA processing (By similarity). Can function as an estrogen receptor corepressor and can also
bind to the HSP27 promoter and decrease its transcription. When associated with RBMX, binds to and stimulates
transcription from the SREBF1 promoter (By similarity). Can inhibit cell proliferation

Gene Wiki entry for SAFB Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000019.9  NC_018930.2  NT_011255.14  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SAFB gene promoter:
         C/EBPbeta   Pax-5   Sp1   Pax-2   Pax-2a   CUTL1   FAC1   Zic3   LyF-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSAFB promoter sequence
   Search SABiosciences Chromatin IP Primers for SAFB

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SAFB


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 19p13.3-p13.2   Ensembl cytogenetic band:  19p13.3   HGNC cytogenetic band: 19p13.3-p13.2

SAFB Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SAFB gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P005574:  view genomic region     (about GC identifiers)

Start:
5,623,046 bp from pter      End:
5,668,489 bp from pter
Size:
45,444 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: SAFB1_HUMAN, Q15424 (See protein sequence)
Recommended Name: Scaffold attachment factor B1  
Size: 915 amino acids; 102642 Da
Subunit: Monomer. Can form homodimers. Interacts with KHDRBS3, POLR2A, SAFB2 or SFRS1, SFRS9 and TRA2B/SFRS10 (By
similarity). Interacts with isoform 1 and isoform 2 of SRPK1 and inhibits its activity. Interacts with RBMX (By
similarity)
Subcellular location: Nucleus
Sequence caution: Sequence=BAD92017.1; Type=Erroneous initiation;
Secondary accessions: A0AV56 B7Z5B6 B7ZLP6 F5H0H3 O60406 Q59HH8
Alternative splicing: 4 isoforms:  Q15424-1   Q15424-2   Q15424-3   Q15424-4   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SAFB: NX_Q15424

Explore proteomics data for SAFB at MOPED 

Post-translational modifications:

  • UniProtKB: Sumoylated by PIAS1 with SUMO1 and SUMO2/3, desumoylated by SENP1. Sumoylation is required for transcriptional
    repressor activity
  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q15424

  • SAFB Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    SAFB Protein Expression
    REFSEQ proteins (4 alternative transcripts): 
    NP_001188267.1  NP_001188268.1  NP_001188269.1  NP_002958.2  

    ENSEMBL proteins: 
     ENSP00000468543   ENSP00000292123   ENSP00000464840   ENSP00000415895   ENSP00000467423  
     ENSP00000464758   ENSP00000438880   ENSP00000404545  

    Human Recombinant Protein Products for SAFB: 
    Browse Purified and Recombinant Proteins at EMD Millipore
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
    Browse OriGene Protein Over-expression Lysates
    OriGene Custom MassSpec 
    OriGene Custom Protein Services for SAFB
    GenScript Custom Purified and Recombinant Proteins Services for SAFB
    Novus Biologicals SAFB Protein
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for SAFB 

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005730NOT nucleolus IDA--

    SAFB for ontologies           About GeneDecksing



    SAFB Antibody Products: 
    EMD Millipore Mono- and Polyclonal Antibodies for the study of SAFB
    Browse R&D Systems for Antibodies
    OriGene Antibodies for SAFB
    OriGene Custom Antibody Services for SAFB
    GenScript Custom Superior Antibodies Services for SAFB
    Novus Biologicals SAFB Antibodies
    Abcam antibodies for SAFB
    Cloud-Clone Corp. Antibodies for SAFB 
    ThermoFisher Antibodies for SAFB
    LSBio Antibodies in human, mouse, rat for SAFB 

    Assay Products for SAFB: 
    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Assay Services for SAFB
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for SAFB
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for SAFB 
    Cloud-Clone Corp. CLIAs for SAFB


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    RBM: RNA binding motif (RRM) containing

    3 InterPro protein domains:
     IPR003034 SAP_dom
     IPR000504 RRM_dom
     IPR012677 Nucleotide-bd_a/b_plait

    Graphical View of Domain Structure for InterPro Entry Q15424

    ProtoNet protein and cluster: Q15424

    2 Blocks protein domains:
    IPB000504 RNA-binding region RNP-1 (RNA recognition motif)
    IPB003034 DNA-binding SAP


    UniProtKB/Swiss-Prot: SAFB1_HUMAN, Q15424
    Similarity: Contains 1 RRM (RNA recognition motif) domain
    Similarity: Contains 1 SAP domain


    SAFB for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SAFB1_HUMAN, Q15424
    Function: Binds to scaffold/matrix attachment region (S/MAR) DNA and forms a molecular assembly point to allow the
    formation of a 'transcriptosomal' complex (consisting of SR proteins and RNA polymerase II) coupling
    transcription and RNA processing (By similarity). Can function as an estrogen receptor corepressor and can also
    bind to the HSP27 promoter and decrease its transcription. When associated with RBMX, binds to and stimulates
    transcription from the SREBF1 promoter (By similarity). Can inhibit cell proliferation

         Genatlas biochemistry entry for SAFB:
    scaffold attachment factor B,97kDa,ubiquitously expressed protein (hsp27 promoter binding-protein)

         Gene Ontology (GO): 5/7 molecular function terms (GO ID links to tree view) (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0001047core promoter binding IEA--
    GO:0003676nucleic acid binding ----
    GO:0003682chromatin binding IEA--
    GO:0003690double-stranded DNA binding TAS1324173
         
    SAFB for ontologies           About GeneDecksing


    Phenotypes:
         4 GenomeRNAi human phenotypes for SAFB:
     Decreased influenza A H1N1 (A/  Decreased influenza A H1N1 (A/  Decreased influenza A/WSN/33 r  Increased gamma-H2AX phosphory 

         11 MGI mutant phenotypes (inferred from 1 allele(MGI details for Safb):
     behavior/neurological  cellular  endocrine/exocrine gland  growth/size  hematopoietic system 
     homeostasis/metabolism  liver/biliary system  mortality/aging  reproductive system  respiratory system 
     skeleton 

    SAFB for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-out Safbtm1So for SAFB

       inGenious Targeting Laboratory - Custom generated mouse model solutions for SAFB 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for SAFB

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for SAFB 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for SAFB 

    miRNA
    Products:
        
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SAFB
    8/13 QIAGEN miScript miRNA Assays for microRNAs that regulate SAFB (see all 13):
    hsa-miR-187* hsa-miR-520d-5p hsa-miR-922 hsa-miR-130a* hsa-miR-183 hsa-miR-23c hsa-miR-885-3p hsa-miR-338-5p
    SwitchGear 3'UTR luciferase reporter plasmidSAFB 3' UTR sequence
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for SAFB
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SAFB

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for SAFB
    Sirion Biotech Customized adenovirus for overexpression of SAFB

    Clone
    Products:
         
    Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene clones in human, mouse for SAFB (see all 5)
    OriGene ORF clones in mouse, rat for SAFB
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 4): SAFB (NM_002967)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SAFB
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SAFB
    Sirion Biotech Customized lentivirus for stable overexpression of SAFB 
                         Customized lentivirus expression plasmids for stable overexpression of SAFB 

    Cell Line
    Products:
         
    GenScript Custom overexpressing Cell Line Services for SAFB
    Search LifeMap BioReagents cell lines for SAFB
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SAFB


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section

    SuperPaths for SAFB About                                                                                                See pathways by source

    SuperPathContained pathways About
    1Sertoli-Sertoli Cell Junction Dynamics
    Epithelial Tight Junctions0.36

    1 Downloadable PowerPoint Slide of QIAGEN Pathway Central Maps for SAFB
        Epithelial Tight Junctions


    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for SAFB

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    5/47 Interacting proteins for SAFB (Q154241, 2, 3 ENSP000002921234) via UniProtKB, MINT, STRING, and/or I2D (see all 47)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ABHD16AO958702, 3, ENSP000003792824MINT-62607 MINT-62705 MINT-62781 I2D: score=5 STRING: ENSP00000379282
    ENSG00000236063O958702, 3, ENSP000004069654MINT-62607 MINT-62705 MINT-62781 I2D: score=5 STRING: ENSP00000406965
    ENSG00000206403O958702, 3MINT-62607 MINT-62705 MINT-62781 I2D: score=5 
    ENSG00000224552O958702, 3MINT-62607 MINT-62705 MINT-62781 I2D: score=5 
    ENSG00000230475O958702, 3MINT-62607 MINT-62705 MINT-62781 I2D: score=5 
    About this table

    Gene Ontology (GO): 5/6 biological process terms (GO ID links to tree view) (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006325chromatin organization TAS1324173
    GO:0006351transcription, DNA-dependent IEA--
    GO:0030520intracellular estrogen receptor signaling pathway IEA--
    GO:0040007growth IEA--
    GO:0042445hormone metabolic process IEA--

    SAFB for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    SAFB for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SAFB (SAFB1)

    10/31 Novoseek inferred chemical compound relationships for SAFB gene (see all 31)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    tyrosine 58.1 22 8943314 (1), 1334490 (1), 17942635 (1), 9886379 (1) (see all 18)
    phosphotyrosine 50.9 3 8619495 (1), 10749687 (1), 8188688 (1)
    gdp 48.3 3 16138900 (1), 7513052 (1), 11073942 (1)
    phosphatidylinositol 45.8 6 8603102 (1), 8413261 (1), 8058768 (1), 8388538 (1) (see all 5)
    serine 41.7 5 9030663 (1), 15192100 (1), 11118435 (1), 9671816 (1)
    gtp 32.6 4 16138900 (1), 17995937 (1), 8940119 (1)
    zinc 18 11 7782343 (1), 18760786 (1), 8521965 (1), 8300628 (1) (see all 9)
    atp 17.8 5 8608138 (1), 10510297 (1), 16621795 (1), 12511576 (1) (see all 5)
    alanine 15 2 7592773 (1), 7923583 (1)
    cysteine 13.7 1 8300628 (1)

    Search CenterWatch for drugs/clinical trials and news about SAFB / SAFB1

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SAFB gene (4 alternative transcripts): 
    NM_001201338.1  NM_001201339.1  NM_001201340.1  NM_002967.3  

    Unigene Cluster for SAFB:

    Scaffold attachment factor B
    Hs.728802  [show with all ESTs]
    Unigene Representative Sequence: NM_001201338
    16 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000589863 ENST00000591666 ENST00000292123 ENST00000592224 ENST00000586934
    ENST00000454510 ENST00000588852 ENST00000590485 ENST00000592707 ENST00000592396
    ENST00000589006 ENST00000586281 ENST00000591991 ENST00000592555 ENST00000538656
    ENST00000433404(uc010xiq.2 uc002mcf.3 uc002mcg.3 uc002mce.4 uc010xis.2 uc010xit.2 uc010xir.2 uc010xiu.2)

    Congresses - knowledge worth sharing:  
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

    miRNA
    Products:
         
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SAFB
    8/13 QIAGEN miScript miRNA Assays for microRNAs that regulate SAFB (see all 13):
    hsa-miR-187* hsa-miR-520d-5p hsa-miR-922 hsa-miR-130a* hsa-miR-183 hsa-miR-23c hsa-miR-885-3p hsa-miR-338-5p
    SwitchGear 3'UTR luciferase reporter plasmidSAFB 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for SAFB
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SAFB
    Clone
    Products:
         
    OriGene clones in human, mouse for SAFB (see all 5)
    OriGene ORF clones in mouse, rat for SAFB
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 4): SAFB (NM_002967)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SAFB
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SAFB
    Sirion Biotech Customized lentivirus for stable overexpression of SAFB 
                         Customized lentivirus expression plasmids for stable overexpression of SAFB 
    Primer
    Products:
        
    OriGene qSTAR qPCR primer pairs in human, mouse for SAFB
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SAFB
      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SAFB
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SAFB

    Additional mRNA sequence: 

    AB208780.1 AK095736.1 AK290444.1 AK293152.1 AK294671.1 AK294718.1 AK295298.1 AK298707.1 
    AK299525.1 AK304474.1 AK307970.1 BC020309.1 BC032055.1 BC126219.1 BC143937.1 BC143938.1 
    BC143939.1 L43631.1 NR_037699.1 U72355.1 

    22 DOTS entries:

    DT.97820339  DT.92450357  DT.450237  DT.100705744  DT.95200171  DT.100811853  DT.100000471  DT.92450343 
    DT.95284311  DT.100059666  DT.40234561  DT.95363107  DT.102836891  DT.121455441  DT.121455473  DT.121455485 
    DT.86838544  DT.95154079  DT.95363086  DT.91879950  DT.95345451  DT.99953773 

    24/574 AceView cDNA sequences (see all 574):

    BE563550 CB130712 CB111505 AI989953 BQ061663 BQ962314 AW292171 AI149129 
    BU855768 AI992051 BC032055 BF589345 AI168166 AA300602 BE503103 BQ958602 
    AI796133 BX419160 BQ941148 AW663387 BP355327 BG775599 BQ061648 BU552606 

    GeneLoc Exon Structure

    5/11 Alternative Splicing Database (ASD) splice patterns (SP) for SAFB (see all 11)    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6a · 6b · 6c ^ 7a · 7b ^ 8a · 8b ^ 9a · 9b ^ 10a · 10b ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14 ^ 15a · 15b ·
    SP1:                                                  -     -     -                                                                                             
    SP2:                                                                                                                                                            
    SP3:                                                                                                                                                            
    SP4:                                                                                                                                                            
    SP5:                          -     -     -     -     -     -     -                                                                                             

    ExUns: 15c ^ 16 ^ 17 ^ 18 ^ 19 ^ 20a · 20b
    SP1:                                          
    SP2:                                          
    SP3:                                          
    SP4:                                          
    SP5:                                          


    ECgene alternative splicing isoforms for SAFB

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    SAFB expression in normal human tissues (normalized intensities)      SAFB embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CAGGGCGGGT
    SAFB Expression
    About this image


    SAFB expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/36 selected tissues (see all 36) fully expand
     
     Epithelium
             vagina ; squamous epithelial cells   
     
     Uterus
             uterus, post-menopause ; glandular cells   
     
     Testis (Reproductive System)    fully expand to see all 4 entries
             Leydig Cells Testis Interstitium
             seminal vesicle ; glandular cells   
     
     Colon (Gastrointestinal Tract)    fully expand to see all 4 entries
             colon ; peripheral nerve/ganglion   
     
     Brain (Nervous System)    fully expand to see all 4 entries
             Cerebral Cortex

    See SAFB Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SAFB

    SOURCE GeneReport for Unigene cluster: Hs.728802

    UniProtKB/Swiss-Prot: SAFB1_HUMAN, Q15424
    Tissue specificity: Ubiquitous. Expressed at high levels in the CNS and at low levels in the liver. Expressed in a
    wide number of breast cancer cell lines

        SABiosciences Expression via Pathway-Focused PCR Array including SAFB: 
              Estrogen Receptor Signaling in human mouse rat

    Primer
    Products:
    OriGene qSTAR qPCR primer pairs in human, mouse for SAFB
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SAFB
    QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SAFB
    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SAFB
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SAFB

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

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

    Orthologs for SAFB gene from 6/13 species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Safb1 , 5 scaffold attachment factor B1, 5 82.73(n)1
    86.64(a)1
      17 (29.40 cM)5
    2249031  NM_001163300.11  NP_001156772.11 
     565848255 
    chicken
    (Gallus gallus)
    Aves SAFB21 scaffold attachment factor B2 70.82(n)
    67.26(a)
      426047  XM_423726.3  XP_423726.3 
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    --
    50(a)
    49(a)
    many ↔ many
    many ↔ many
    GL343717.1(44007-85821)
    GL343717.1(6762-34210)
    zebrafish
    (Danio rerio)
    Actinopterygii Dr.29182 Danio rerio mRNA similar to scaffold attachment factor more 76.42(n)    BC044153.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG122396
    CG28396
    (see all 3)
    --
    9(a)
    8(a)
    (see all 3)
    possible ortholog
    possible ortholog
    (see all 3)
    X(5686180-5688576)
    2L(625663-628200)
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes RPG16
    eIF3a subunit of the core complex of translation i...
    4(a)
    1 → many
    II(395383-398277)


    ENSEMBL Gene Tree for SAFB (if available)
    TreeFam Gene Tree for SAFB (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SAFB gene
    SAFB22  SLTM2  
    4 SIMAP similar genes for SAFB using alignment to 6 protein entries:     SAFB1_HUMAN (see all proteins):
    DKFZp779C1727    SAFB2    SLTM    HNRNPD

    SAFB for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for SAFB
    PGOHUM00000242911


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/975 SNPs in SAFB are shown (see all 975)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1387155701,2
    --5625068(+) GCACAA/GATTTG 5 -- int10--------
    rs1812647891,2
    --5625128(+) ACGAAC/TACCGC 5 -- int10--------
    rs37607671,2
    C,F,A,H--5625269(+) AGGGGA/GAACAG 5 -- int1 trp320Minor allele frequency- G:0.48NS EA NA WA 2346
    rs1862462571,2
    --5625340(+) GGGAAA/GAGGGT 5 -- int10--------
    rs1891049521,2
    --5625571(+) CATGGG/TACTGG 5 -- int10--------
    rs1411581421,2
    --5625628(+) AGTTTC/GTAGGG 5 -- int10--------
    rs761490291,2
    C--5625642(+) TCATCG/ATGATT 5 -- int11Minor allele frequency- A:0.01EA 120
    rs739200301,2
    C--5625656(+) GTGTTC/TGGTAC 5 -- int12Minor allele frequency- T:0.08WA 120
    rs1824797581,2
    --5625770(+) ATTCAA/GTATCC 5 -- int10--------
    rs1469307891,2
    --5625787(+) GCACAA/GTCACC 5 -- int10--------

    HapMap Linkage Disequilibrium report for SAFB (5623046 - 5668489 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 7 variations for SAFB:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2718045CNV Deletion23290073
    esv2676285CNV Deletion23128226
    nsv2395CNV Insertion18451855
    dgv3694n71CNV Loss21882294
    nsv910894CNV Loss21882294
    dgv3693n71CNV Loss21882294
    esv275346CNV Gain+Loss21479260

    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing SAFB
    DNA2.0 Custom Variant and Variant Library Synthesis for SAFB

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 602895    OMIM disorders: --

    19 diseases for SAFB:    About MalaCards
    cysticercosis    denys-drash syndrome    hepatitis e    familial breast cancer
    acute promyelocytic leukemia    gout    encephalomyelitis    osteosarcoma
    intrahepatic cholangiocarcinoma    oral squamous cell carcinoma    cholangiocarcinoma    huntington's disease
    breast cancer    squamous cell carcinoma    cerebritis    endotheliitis
    hepatitis    leukemia    neuronitis


    SAFB for disorders           About GeneDecksing

    10 Novoseek inferred disease relationships for SAFB gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    hydatids 19.6 1 7517028 (1)
    cysticercosis 8.49 1 10391846 (1)
    breast cancer 4.31 14 19137425 (3), 19077293 (2), 12660241 (1), 14587024 (1)
    leukemia 4.3 1 7537740 (1)
    cancer 2.43 2 20014070 (1)
    breast carcinoma 0 1 7506422 (1)
    shock 0 9 10212141 (3), 11058091 (3)
    glioblastoma 0 1 9444363 (1)
    osteosarcoma 0 1 10648616 (1)
    tumors 0 5 14587024 (2), 12660241 (1), 19137425 (1)

    Human Genome Epidemiology (HuGE) Navigator: SAFB (1 document)

    Export disorders for SAFB gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for SAFB gene, integrated from 9 sources (see all 290):
    (articles sorted by number of sources associating them with SAFB)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Purification and molecular cloning of the scaffold attachment factor B (SAF-B), a novel human nuclear protein that specifically binds to S/MAR-DNA. (PubMed id 8600450)1, 2, 3, 9 Renz A. and Fackelmayer F.O. (1996)
    2. SAFB2, a new scaffold attachment factor homolog and estrogen receptor corepressor. (PubMed id 12660241)1, 2, 9 Townson S.M.... Oesterreich S. (2003)
    3. SAF-B couples transcription and pre-mRNA splicing to SAR/MAR elements. (PubMed id 9671816)1, 2, 9 Nayler O.... Stamm S. (1998)
    4. The enzymatic activity of SR protein kinases 1 and 1a is negatively affected by interaction with scaffold attachment factors B1 and 2. (PubMed id 19674106)1, 2, 9 Tsianou D....Georgatsou E. (2009)
    5. Assignment of SAFB encoding Hsp27 ERE-TATA binding protein (HET)/scaffold attachment factor B (SAF-B) to human chromosome 19 band p13. (PubMed id 9605873)1, 3, 9 DuPont B.R....Oesterreich S. (1997)
    6. Cloning and characterization of an alternatively spliced form of SR protein kinase 1 that interacts specifically with scaffold attachment factor-B. (PubMed id 11509566)1, 2, 9 Nikolakaki E....Giannakouros T. (2001)
    7. Novel nuclear matrix protein HET binds to and influences activity of the HSP27 promoter in human breast cancer cells. (PubMed id 9328833)1, 2, 9 Oesterreich S....Fuqua S.A.W. (1997)
    8. Co-repressor activity of scaffold attachment factor B 1 requires sumoylation. (PubMed id 21527249)1, 2 Garee J.P....Oesterreich S. (2011)
    9. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)1, 2 Beausoleil S.A.... Gygi S.P. (2006)
    10. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 6294 HGNC: 10520 AceView: SAFB Ensembl:ENSG00000160633 euGenes: HUgn6294
    ECgene: SAFB H-InvDB: SAFB

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for SAFB Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for SAFB Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for SAFB gene:
    Search GeneIP for patents involving SAFB

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
     Browse for Gene Knock-down Tools from EMD Millipore
     Browse Small Molecules at EMD Millipore
     Browse Kits and Assays available from EMD Millipore
     EMD Millipore Mono- and Polyclonal Antibodies for the study of SAFB
     Browse Purified and Recombinant Proteins at EMD Millipore
     
     EMD Millipore Custom Antibody & Bulk Services
     EMD Millipore Preclinical / Clinical Development Services
     EMD Millipore Immunoassay Services
     EMD Millipore Target Screening & Profiling Services

      
     Browse Antibodies   Browse Cell Culture Products  
     Browse ELISAs   Browse Flow Cytometry Kits  
     Browse Primer Pairs   Browse Kinase Activity Assays/Reagents  
     Browse ELISpot Kits/Development Modules   Browse TFB/Immunoprecipitation Assays  
     Browse Apoptosis Detection Kits/Reagents   Browse Ubiquitin Proteasome Pathway (UPP) Assay Kits/Reagents  
     Browse DNA Damage/Repair Kits/Reagents   Browse Multiplex/Array Assay Kits/Reagents  
     Browse Cell Selection/Detection Kits/Reagents   Browse Secondary Antibodies/Controls/Staining Reagents  
     Browse Protease Activity Assays and Reagents   Browse Recombinant/Natural Proteins  
     Browse Stem Cell Products   Browse Tocris Biochemicals & Compounds  
     Browse cDNA Clones   Browse Proteome Profiler Antibody Arrays  
     OriGene Antibodies for SAFB   OriGene RNAi products in human, mouse, rat for SAFB  
     Browse OriGene qPCR primer pairs and template standards   Browse OriGene Protein Over-expression Lysates  
     OriGene Custom Mass Spec   OriGene clones in human, mouse for SAFB  
     OriGene qSTAR qPCR primer pairs in human, mouse for SAFB   Browse OriGene full length recombinant human proteins expressed in human HEK293 cells  
     OriGene ORF clones in mouse, rat for SAFB   OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling  
     OriGene Custom Antibody Services for SAFB   OriGene Custom Protein Services for SAFB  

     
     
     QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat SAFB
     QIAGEN SeqTarget long-range PCR primers for resequencing SAFB
     QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SAFB
     QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SAFB
     QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SAFB
     QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SAFB
     GenScript Custom Purified and Recombinant Proteins Services for SAFB GenScript cDNA clones with any tag delivered in your preferred vector for SAFB
     GenScript Custom Assay Services for SAFB GenScript Custom Superior Antibodies Services for SAFB
     GenScript Custom overexpressing Cell Line Services for SAFB CloneReady with Over 120,000 Genes
     Gene Synthesis: Any Gene in Any Vector Vector-based siRNA and miRNA, Ready for Transfection
     Gene Mutant Library, Variants up to 10^11 Plasmid Preparation
     Custom Peptide Services
     Search for Antibodies & Assays

     Regulatory tfbs in SAFB promoter
     Search Chromatin IP Primers for SAFB
     RT2 qPCR Primer Assay in human, mouse, rat SAFB
     GNC Network for SAFB
     SABiosciences PCR Arrays including human, mouse, rat SAFB
     Search Tocris compounds for SAFB (SAFB1)
     Browse Sino Biological Proteins and Antibodies
     Browse Sino Biological Cell Lysates
     Browse Sino Biological cDNA Clones
     4000+ Proteins
     Search Sino Biological for antibodies, proteins & pathways
     Protein Production Services
     Transfection Reagents
     Protein A/G/L resins
     Isotyping reagents
     Search www.enzolifesciences.com for proteins, assays, substrates, inhibitors & antibodies
     Novus Tissue Slides
     SAFB antibodies
     SAFB proteins
     Antibodies for SAFB
     See all of Abcam's Antibodies, Kits and Proteins for SAFB
     Custom Antibody / Protein Production Service
     Bulk Purchasing
     Advantages of Rabbit Monoclonal antibodies
     Abcam protocols and scientific support
     Browse ProSpec Recombinant Proteins




     Proteins for SAFB
     Antibodies for SAFB
     ELISAs for SAFB
     CLIAs for SAFB
     Search LifeMap BioReagents cell lines for SAFB
     Gene Synthesis
     Protein Engineering
     Variant Library Synthesis
     Codon Optimization
     Protein Production and Purification
     Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SAFB
     SwitchGear 3'UTR luciferase reporter plasmids for SAFB
     SwitchGear Promoter luciferase reporter plasmids for SAFB
     ThermoFisher Antibodies for SAFB
     Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SAFB
     inGenious Targeting Laboratory - Custom generated mouse model solutions for SAFB
     inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for SAFB
    Customized:
     lentivirus for stable overexpression of SAFB
     lentivirus expression plasmids for stable overexpression of SAFB
     adenovirus for overexpression of SAFB
     LSBio Antibodies in human, mouse, rat for SAFB
    Customized transgenic rodents for:
     Humanization
     Biomarker expression
     Off-target effect monitoring
     Translational medicine
     Tissue-specific gene expresssion
     Time-controlled gene expresssion
           
    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

    View Random Gene

    Category
    (GIFtS: 73)
    transforming growth factor, beta 1
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


    Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

    Hot genes      Disease genes      SAFB gene at Home site.
    hostname: 356980-web2.xennexinc.com index build: 106 solr: 1.4