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

SCXB Gene

protein-coding   GIFtS: 36
GCID: GC08P145397

scleraxis homolog B (mouse)
 Explore 4 diseases affiliated with
SCXB via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for SCXB    

Aliases
for SCXB gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Scleraxis Homolog B (Mouse)1 2     BHLHA413
BHLHa481     BHLHA483
Class A Basic Helix-Loop-Helix Protein 412 3     SCX3
Class A Basic Helix-Loop-Helix Protein 482 3     BHLHa411
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


Summaries
for SCXB gene

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


Genomic Views
for SCXB 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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000008.10  NT_008046.16  
Regulatory elements:
   SABiosciences 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 SABiosciences Chromatin IP Primers for SCXB

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays 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+,PATCHES 145,406,757-145,408,285     

Proteins
for SCXB gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
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)
Subcellular location: Nucleus (By similarity)

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

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q7RTU7

    • SCXB Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_001073983.1  
    ENSEMBL proteins: 
     ENSP00000342868  

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    Uscn Proteins for SCXB

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

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


    SCXB for ontologies           About GeneDecksing



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    Protein Domains /
    Families
    for SCXB gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    SCXB for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR011598 HLH_dom

    Graphical View of Domain Structure for InterPro Entry Q7RTU7

    ProtoNet protein and cluster: Q7RTU7

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

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


    Function
    for SCXB gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    Function Summary:

         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)

    miRNA
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    Inhib. RNA
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    In Situ Assay
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    Gene Ontology (GO): 5 molecular function terms (GO ID links to tree view):    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:0070888E-box binding ----


    SCXB for ontologies           About GeneDecksing


    Animal Models:
         Mouse knock-outs for SCXB: Scxtm1.1Stzr Scxtm2Eno Scxtm1Eno
         9 MGI mutant phenotypes (inferred from 4 alleles) (MGI details for Scx):
     behavior/neurological  cardiovascular system  embryogenesis  growth/size  limbs/digits/tail 
     mortality/aging  muscle  normal  skeleton 

    SCXB for phenotypes           About GeneDecksing


    Pathways & Interactions
    for SCXB gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks 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): 5/24 biological process terms (GO ID links to tree view) (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 ----


    SCXB for ontologies           About GeneDecksing



    Drugs & Compounds
    for SCXB gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SCXB
    Search CenterWatch for drugs/clinical trials and news about SCXB / SCX 

    Transcripts
    for SCXB gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    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, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    REFSEQ mRNAs for SCXB gene: 
    NM_001080514.1  

    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)

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    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SCXB (see all 7)
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    Clone
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    Primer
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    5 DOTS entries:

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

    GeneLoc Exon Structure


    Expression
    for SCXB gene

    (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

    SCXB expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: --

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    SCXB expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    10/48 LifeMap In Vivo Development Anatomical Compartments/Cells (see all 48) 
    Tissue Anatomical Compartment CellCategory (developmental path)
    SomiteSacral SyndetomeTendon Progenitor CellsTendons & Ligaments
    CartilageCervical Intervertebral DiscPrechondrocytic Mesenchymal CellsCartilage
    CartilageLumbar Intervertebral DiscPrechondrocytic Mesenchymal CellsCartilage
    CartilageSacral Intervertebral DiscPrechondrocytic Mesenchymal CellsCartilage
    CartilageThoracic Intervertebral DiscPrechondrocytic Mesenchymal CellsCartilage
    Head MesenchymeBranchial Arch 1Cranial Tendons CellsTendons & Ligaments
    LimbLimb BudTendon Progenitor CellsTendons & Ligaments
    SomiteCervical Central Neural ArchPrechondrocytic Mesenchymal CellsBone, Cartilage
    SomiteCervical Dorsal Neural ArchPrechondrocytic Mesenchymal CellsBone, Cartilage
    SomiteCervical Mesenchymal SclerotomeCervical Sclerotome CellsBone, Cartilage, Tendons & Ligaments
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    Intervertebral disc (IVD) annulus fibrosus (AF) cells (Differentiation of s...)Cartilage

    See SCXB Protein Expression from SPIRE MOPED and PaxDB
    SOURCE GeneReport for Unigene cluster: Hs.553250
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    In Situ
    Assay Products:     
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    Orthologs
    for SCXB gene

    (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.

    Orthologs for SCXB gene from 4/14 species (see all 14)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves SCX1 class II bHLH protein scleraxis 82(n)
    80.75(a)    		   374101  NM_204253.1  NP_989584.1 
    lizard
    (Anolis carolinensis)    		 Reptilia --
    		 --
    		 67(a)
    		 1 → many
    		 GL343752.1(215893-216489)
    zebrafish
    (Danio rerio)    		 Actinopterygii scxa1 scleraxis homolog A (mouse) 69.22(n)
    71.04(a)    		   100034489  NM_001083069.1  NP_001076538.1 
    fruit fly
    (Drosophila melanogaster)    		 Insecta CG335576
    		 --
    		 37(a)
    		 1 → many
    		 X(9903268-9903886)


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

    Paralogs
    for SCXB gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SCXB gene
    SCXA1 2  TCF242  NHLH12  TWIST12  TWIST22  TAL12  HAND22  TCF232  
    LYL12  NHLH22  TAL22  TCF152  TCF212  HAND12  MSC2  
    6 SIMAP similar genes for SCXB using alignment to 1 protein entry:     SCX_HUMAN:
    TAL2    TCF15    HAND2    TWIST2    ATOH7    NHLH2

    SCXB for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for SCXB
    PGOHUM00000262565


    Genomic Variants
    for SCXB gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 4 variations for SCXB
         4 CNVs: 23291 31457 30305 30306
    SABiosciences Cancer Mutation PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SCXB
    DNA2.0 Custom Variant and Variant Library Synthesis for SCXB

    Disorders / Diseases
    for SCXB gene

    (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.)
    About This Section
    SCXB for disorders           About GeneDecksing

    4 diseases for SCXB:    About MalaCards
    eosinophilia-myalgia syndrome    endomyocardial fibrosis    eosinophilia    fibrosis

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

    Export disorders for SCXB gene to outside databases

    Publications
    for SCXB gene

    (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 SCXB gene integrated from 9 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. (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. (2002)

    External Searches for SCXB gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing SCXB gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 642658 HGNC: 32322 Ensembl:ENSG00000187786 euGenes: HUgn642658 ECgene: SCXB
    H-InvDB: SCXB

    Other Databases showing SCXB gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing SCXB gene

    (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 SCXB Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for SCXB gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		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



    Products
    for SCXB gene

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    In Situ Hybridization Assays from
    Advanced Cell Diagnostics
    About This Section

     
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    GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 27 Apr 2013

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    VWF
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    von Willebrand factor
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