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SCXB Gene

protein-coding   GIFtS: 36
GCID: GC08P145397

Scleraxis Homolog B (Mouse)

  See SCXB-related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Scleraxis Homolog B (Mouse)1 2     BHLHA413
Class A Basic Helix-Loop-Helix Protein 412 3     BHLHA483
Class A Basic Helix-Loop-Helix Protein 482 3     SCX3
bHLHa482 3     bHLHa413
Basic Helix-Loop-Helix Transcription Factor Scleraxis2     

External Ids:    HGNC: 323221   Entrez Gene: 6426582   Ensembl: ENSG000001877867   UniProtKB: Q7RTU73   

Export aliases for SCXB gene to outside databases

Previous GC identifers: GC08U900640 GC08P140605


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SCXB Gene:
SCXB (scleraxis homolog B (mouse)) is a protein-coding gene. Diseases associated with SCXB include eosinophilia-myalgia syndrome. An important paralog of this gene is NHLH1.

UniProtKB/Swiss-Prot: SCX_HUMAN, Q7RTU7
Function: Plays an early essential role in mesoderm formation, as well as a later role in formation of
somite-derived chondrogenic lineages (By similarity)

Gene Wiki entry for SCXB (LOC642658) 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000008.10  NT_008046.17  
Regulatory elements:
   Regulatory transcription factor binding sites in the SCXB gene promoter:
         CREB   RFX1   NF-1   Spz1   deltaCREB   STAT3   Lmo2   Nkx2-5   MRF-2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for SCXB

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SCXB


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

Entrez Gene cytogenetic band: 8q24.3   Ensembl cytogenetic band:  8q24.3   HGNC cytogenetic band: 8q24.3

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

GeneLoc information about chromosome 8         GeneLoc Exon Structure

GeneLoc location for GC08P145397:  view genomic region     (about GC identifiers)

Start:
145,321,517 bp from pter      End:
145,323,045 bp from pter
Size:
1,529 bases      Orientation:
plus strand

1 alternative location:
Chr8+,NW_003315924 35,873-37,401     

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: SCX_HUMAN, Q7RTU7 (See protein sequence)
Recommended Name: Basic helix-loop-helix transcription factor scleraxis  
Size: 201 amino acids; 21596 Da
Subunit: Efficient DNA binding requires dimerization with another bHLH protein. Dimerizes and binds the E-box
consensus sequence with E12 (By similarity)

Explore the universe of human proteins at neXtProt for SCXB: NX_Q7RTU7

Explore proteomics data for SCXB at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See SCXB Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001073983.1  
    ENSEMBL proteins: 
     ENSP00000342868  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    bHLH: Basic helix-loop-helix proteins

    1 InterPro protein domain:
     IPR011598 bHLH_dom

    Graphical View of Domain Structure for InterPro Entry Q7RTU7

    ProtoNet protein and cluster: Q7RTU7

    1 Blocks protein domain: IPB001092 Basic helix-loop-helix dimerization domain bHLH

    UniProtKB/Swiss-Prot: SCX_HUMAN, Q7RTU7
    Similarity: Contains 1 bHLH (basic helix-loop-helix) domain


    Find genes that share domains with SCXB           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SCX_HUMAN, Q7RTU7
    Function: Plays an early essential role in mesoderm formation, as well as a later role in formation of
    somite-derived chondrogenic lineages (By similarity)

         Gene Ontology (GO): Selected molecular function terms (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding ----
    GO:0043425bHLH transcription factor binding ----
    GO:0043565sequence-specific DNA binding ----
    GO:0046982protein heterodimerization activity ----
    GO:0046983protein dimerization activity ----
         
    Find genes that share ontologies with SCXB           About GenesLikeMe


    Phenotypes:
         9 MGI mutant phenotypes (inferred from 4 alleles(MGI details for Scx):
     behavior/neurological  cardiovascular system  embryogenesis  growth/size/body  limbs/digits/tail 
     mortality/aging  muscle  normal  skeleton 

    Find genes that share phenotypes with SCXB           About GenesLikeMe

    Animal Models:
         MGI mouse knock-outs for SCXB: Scxtm1.1Stzr Scxtm2Eno Scxtm1Eno

       genOway: Develop your customized and physiologically relevant rodent model for SCXB

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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    SCX_HUMAN, Q7RTU7: Nucleus (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    extracellular2
    chloroplast1
    cytosol1

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus ----
    GO:0005667transcription factor complex ----

    Find genes that share ontologies with SCXB           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SCXB
    Interactions:

        Search GeneGlobe Interaction Network for SCXB

    1 Interacting protein for SCXB (Q7RTU73) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SOX9P484363I2D: score=1 
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 24):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001707mesoderm formation ----
    GO:0001894tissue homeostasis ----
    GO:0001958endochondral ossification ----
    GO:0002062chondrocyte differentiation ----
    GO:0003179heart valve morphogenesis ----

    Find genes that share ontologies with SCXB           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for SCXB (SCX)



    (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,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for SCXB gene: 
    NM_001080514.2  

    Unigene Cluster for SCXB:

    Scleraxis homolog B (mouse)
    Hs.553250  [show with all ESTs]
    Unigene Representative Sequence: BQ718115
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000340210(uc003zbn.2)
    miRNA
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    5 DOTS entries:

    DT.97823594  DT.65284143  DT.95251970  DT.100019265  DT.91875296 

    GeneLoc Exon Structure


    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    SCXB expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    SCXB Expression
    About this image


    SCXB expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 13) fully expand
     
     Cartilage (Muscoskeletal System)    fully expand to see all 15 entries
             Prechondrocytic Mesenchymal Cells Annulus Fibrosus
             Intervertebral disc (IVD) annulus fibrosus (AF) cells
     
     Bone (Muscoskeletal System)    fully expand to see all 13 entries
             Prechondrocytic Mesenchymal Cells Spinous Process Of Vertebrae
     
     Tendon & Ligament
             Tendon Progenitor Cells Limb Bud
     
     Somite (Muscoskeletal System)    fully expand to see all 5 entries
             Tendon Progenitor Cells Syndetome
     
     Tendon & Ligament (Muscoskeletal System)    fully expand to see all 4 entries
             Early Tenocyte Cells Limb Tendon Primordia
    SCXB Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SCXB Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.553250
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    In Situ
    Assay Products:
     

     
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    (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)
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    This gene was present in the common ancestor of animals.

    Orthologs for SCXB gene from Selected species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Scx1 , 5 scleraxis1, 5 87.56(n)1
    94.03(a)1
      15 (35.92 cM)5
    202891  NM_198885.31  NP_942588.11 
     764574385 
    chicken
    (Gallus gallus)
    Aves SCXB1 scleraxis homolog B (mouse) 78.97(n)
    77.01(a)
      374101  NM_204253.1  NP_989584.1 
    lizard
    (Anolis carolinensis)
    Reptilia --
    Uncharacterized protein
    74(a)
    1 → many
    GL343752.1(190008-217016)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia LOC1004901701 basic helix-loop-helix transcription factor scleraxis-like 72.68(n)
    69.95(a)
      100490170  XM_004919789.1  XP_004919846.1 
    zebrafish
    (Danio rerio)
    Actinopterygii scxa1 scleraxis homolog A (mouse) 67.03(n)
    66.49(a)
      100034489  NM_001083069.1  NP_001076538.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG335576
    --
    35(a)
    1 → many
    X(9903268-9903886)
    worm
    (Caenorhabditis elegans)
    Secernentea hlh-86
    Protein HLH-8 (hlh-8) mRNA, complete cds
    24(a)
    1 → many
    X(8116636-8120106) WBGene00001953


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SCXB gene
    NHLH12  TWIST12  TWIST22  HAND22  TAL12  NHLH22  LYL12  TAL22  
    TCF152  HAND12  SCXA2  
    4 SIMAP similar genes for SCXB using alignment to 1 protein entry:     SCX_HUMAN:
    TAL2    TCF15    HAND2    TWIST2

    Find genes that share paralogs with SCXB           About GenesLikeMe


    1 Pseudogenes.org Pseudogene for SCXB
    PGOHUM00000262565


    (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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for SCXB (see all 20):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv989584CNV Deletion20482838
    dgv7960n71CNV Loss21882294
    nsv891827CNV Loss21882294
    dgv7955n71CNV Loss21882294
    nsv891817CNV Loss21882294
    dgv7957n71CNV Loss21882294
    nsv891807CNV Loss21882294
    dgv7958n71CNV Loss21882294
    dgv7940n71CNV Loss21882294
    dgv7961n71CNV Loss21882294

    Site Specific Mutation Identification with PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    1 disease for SCXB:    
    About MalaCards
    eosinophilia-myalgia syndrome

    1 disease from the University of Copenhagen DISEASES database for SCXB:
    eosinophilia-myalgia syndrome

    Find genes that share disorders with SCXB           About GenesLikeMe


    Export disorders for SCXB 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)
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    PubMed articles for SCXB gene integrated from 10 sources:
    (articles sorted by number of sources associating them with SCXB)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. DNA sequence and analysis of human chromosome 8. (PubMed id 16421571)1, 2 Nusbaum C....Lander E.S. (Nature 2006)
    2. Exhaustive identification of human class II basic helix-loop-helix proteins by virtual library screening. (PubMed id 12617822)1, 2 McLellan A.S.... Kealey T. (Gene Expr. Patterns 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    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)
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    Entrez Gene: 642658 HGNC: 32322 Ensembl:ENSG00000187786 euGenes: HUgn642658 ECgene: SCXB
    H-InvDB: SCXB

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for SCXB Pharmacogenomics, SNPs, Pathways

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

    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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from genOway)
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     Custom PCR Arrays for SCXB Search Chromatin IP Primers for SCXB
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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