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

SOX4 Gene

protein-coding   GIFtS: 59
GCID: GC06P021593

SRY (sex determining region Y)-box 4
 Explore 32 diseases affiliated with
SOX4 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for SOX4    

Aliases
for SOX4 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
SRY (Sex Determining Region Y)-Box 41 2
EVI162
Ecotropic Viral Integration Site 162
SRY-Related HMG-Box Gene 42
Transcription Factor SOX-42

External Ids:    HGNC: 112001   Entrez Gene: 66592   Ensembl: ENSG000001247667   OMIM: 1844305   UniProtKB: Q069453   

Export aliases for SOX4 gene to outside databases

Previous GC identifers: GC06P021651 GC06P021701


Summaries
for SOX4 gene

(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 SOX4:
This intronless gene encodes a member of the SOX (SRY-related HMG-box) family of transcription factors involved in the
regulation of embryonic development and in the determination of the cell fate. The encoded protein may act as a
transcriptional regulator after forming a protein complex with other proteins, such as syndecan binding protein
(syntenin). The protein may function in the apoptosis pathway leading to cell death as well as to tumorigenesis and
may mediate downstream effects of parathyroid hormone (PTH) and PTH-related protein (PTHrP) in bone development. The
solution structure has been resolved for the HMG-box of a similar mouse protein. (provided by RefSeq, Jul 2008)

UniProtKB/Swiss-Prot: SOX4_HUMAN, Q06945
Function: Transcriptional activator that binds with high affinity to the T-cell enhancer motif 5'-AACAAAG-3' motif

Gene Wiki entry for SOX4


Genomic Views
for SOX4 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_000006.11  NC_018917.1  NT_007592.15  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SOX4 gene promoter:
         STAT5B   NCX/Ncx   HTF   FOXD3   IRF-1   E47   AREB6   Hand1   ITF-2   Pax-4a   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: SOX4 promoter sequence
   Search SABiosciences Chromatin IP Primers for SOX4

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SOX4


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

Entrez Gene cytogenetic band: 6p22.3   Ensembl cytogenetic band:  6p22.3   HGNC cytogenetic band: 6p22.3

SOX4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SOX4 gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06P021593:  view genomic region     (about GC identifiers)

Start:
 21,593,972 bp from pter      End:
 21,598,850 bp from pter
Size:
 4,879 bases      Orientation:
 plus strand

Proteins
for SOX4 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: SOX4_HUMAN, Q06945 (See protein sequence)
Recommended Name: Transcription factor SOX-4  
Size: 474 amino acids; 47263 Da
Subunit: Interacts with UBE2I
Subcellular location: Nucleus

Explore the universe of human proteins at neXtProt for SOX4: NX_Q06945

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q06945

    • SOX4 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_003098.1  
    ENSEMBL proteins: 
     ENSP00000244745   ENSP00000438412  

    Human Recombinant Protein Products: 
    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
    OriGene Purified Protein: SOX4
    OriGene Protein Over-expression Lysate: SOX4
    OriGene Custom Protein Services for SOX4 
    GenScript Custom Purified and Recombinant Proteins Services for SOX4
    Novus Biologicals SOX4 Protein
    Novus Biologicals SOX4 Lysate
    Browse Sino Biological Recombinant Proteins
    Browse ProSpec Recombinant Proteins
    Uscn Proteins for SOX4

    Gene Ontology (GO): 4 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005730NOT nucleolus IDA--
    GO:0005737cytoplasm IDA17875931
    GO:0005739mitochondrion IDA--


    SOX4 for ontologies           About GeneDecksing



    SOX4 Antibody Products: 
    EMD Millipore Mono- and Polyclonal Antibodies for the study of SOX4
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    Browse OriGene Antibodies
    OriGene Custom Antibody Services for SOX4 
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    Novus Biologicals SOX4 Antibodies
    Search for Antibodies for SOX4 at Abcam  
    Uscn Antibodies for SOX4
    ThermoFisher Antibodies for SOX4

    Assay Products for SOX4: 
    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Immunoassay Development
    Browse OriGene Fluorogenic Cell Assay Kits
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    GenScript Custom Assay Services for SOX4
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    Uscn ELISAs and CLIAs for SOX4

    Protein Domains /
    Families
    for SOX4 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    SOX4 for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR009071 HMG_superfamily
     IPR017386 SOX-12/11/4a

    Graphical View of Domain Structure for InterPro Entry Q06945

    ProtoNet protein and cluster: Q06945

    UniProtKB/Swiss-Prot: SOX4_HUMAN, Q06945
    Similarity: Contains 1 HMG box DNA-binding domain


    Function
    for SOX4 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: SOX4_HUMAN, Q06945
    Function: Transcriptional activator that binds with high affinity to the T-cell enhancer motif 5'-AACAAAG-3' motif

         Genatlas biochemistry entry for SOX4:
    SRY related HMG box gene 4,transcriptional activator in embryonic heart,developing
    CNS,lung,tooth-bud,mesonephros,genitalia,pre B and T cells,controlled by progesterone,expressed in normal breast and
    in breast cancer cells,modulator of LINE retroposons promoter activity

    miRNA
    Products:            		miRTarBase miRNAs that target SOX4:
    hsa-mir-191 (MIRT004691), hsa-mir-335 (MIRT002431), hsa-mir-129-5p (MIRT004043)

    OriGene 3'-UTR Clone: SOX4
    Browse MicroRNA Expression Plasmids
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SOX4
    8/143 QIAGEN miScript miRNA Assays for microRNAs that regulate SOX4 (see all 143):
    hsa-miR-140-5p hsa-miR-576-3p hsa-miR-106a hsa-miR-3074-3p hsa-miR-3653 hsa-miR-519a hsa-miR-92b hsa-miR-130b
    SwitchGear 3'UTR luciferase reporter plasmid: SOX4 3' UTR sequence
    Inhib. RNA
    Products:            		Browse for Gene Knock-down Tools from EMD Millipore
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SOX4 (see all 4)
    OriGene shRNA RFP: SOX4
    OriGene siRNA: SOX4
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SOX4

    Gene Editing
    Products:    		DNA2.0 Custom Protein Engineering Service for SOX4

    Clone
    Products:             		Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SOX4 (see all 2)
    OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SOX4
    OriGene custom cloning services – gene synthesis, subcloning, mutagenesis, variant library, vector shuttling 
    GenScript: all cDNA clones in your preferred vector: SOX4 (NM_003107)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SOX4
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SOX4 

    Cell Line
    Products:             		GenScript Custom overexpressing Cell Line Services for SOX4
    Search LifeMap BioReagents cell lines for SOX4

    In Situ Assay
    Products:       
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SOX4

    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:0000976transcription regulatory region sequence-specific DNA binding ISS--
    GO:0001046core promoter sequence-specific DNA binding IDA--
    GO:0001071nucleic acid binding transcription factor activity IMP--
    GO:0001077RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription IDA19147588
    GO:0001105RNA polymerase II transcription coactivator activity ISS--


    SOX4 for ontologies           About GeneDecksing


    2 GenomeRNAi human phenotypes for SOX4:
     Increased S DNA content  Synthetic lethal with c-Myc af 

    Animal Models:
         Mouse knock-outs for SOX4: Sox4tm2Cle Sox4tm1.1Vlf Sox4tm1Cle
         15/20 MGI mutant phenotypes (inferred from 6 alleles) (MGI details for Sox4) (see all 20):
     behavior/neurological  cardiovascular system  cellular  craniofacial  digestive/alimentary 
     embryogenesis  endocrine/exocrine gland  growth/size  hematopoietic system  homeostasis/metabolism 
     immune system  integument  limbs/digits/tail  mortality/aging  nervous system 

    SOX4 for phenotypes           About GeneDecksing


    Pathways & Interactions
    for SOX4 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

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1IL-5 Signaling Pathway
    		IL-5 Signaling Pathway1.00
    2Rho Family GTPases
    		Molecular Mechanisms of Cancer0.51

    1 Downloadable PowerPoint Slide of QIAGEN Pathway Central Maps for SOX4
        Molecular Mechanisms of Cancer

    1 BioSystems Pathway for SOX4 
        IL-5 Signaling Pathway


    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for SOX4

    STRING Interaction Network Preview (showing 5 interactants - click image to see 7)

    5/7 Interacting proteins for SOX4 (Q069453 ENSP000002447454) via UniProtKB, MINT, STRING, and/or I2D (see all 7)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SDCBPO005603, ENSP000002601304I2D: score=3 STRING: ENSP00000260130
    UBE2IP632793, ENSP000003248974I2D: score=2 STRING: ENSP00000324897
    MDM2Q009873, ENSP000004172814I2D: score=1 STRING: ENSP00000417281
    TP53P046373, ENSP000002693054I2D: score=1 STRING: ENSP00000269305
    EP300Q094723, ENSP000002632534I2D: score=1 STRING: ENSP00000263253
    About this table

    Gene Ontology (GO): 5/44 biological process terms (GO ID links to tree view) (see all 44):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001501skeletal system development ISS--
    GO:0001841neural tube formation ISS--
    GO:0002328pro-B cell differentiation ISS--
    GO:0003183mitral valve morphogenesis ISS--
    GO:0003211cardiac ventricle formation ISS--


    SOX4 for ontologies           About GeneDecksing



    Drugs & Compounds
    for SOX4 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

    SOX4 for compounds           About GeneDecksing

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

    Browse Tocris compounds for SOX4
    4 Novoseek chemical compound relationships for SOX4 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    progestin 33 9 10517668 (3), 10343288 (3)
    oligonucleotide 26.6 2 12216117 (1)
    prostaglandin 8.44 2 12216117 (1)
    progesterone 5.95 5 10343288 (2), 16631117 (1)

    Search CenterWatch for drugs/clinical trials and news about SOX4 

    Transcripts
    for SOX4 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 SOX4 gene: 
    NM_003107.2  

    Unigene Cluster for SOX4:

    SRY (sex determining region Y)-box 4
    Hs.643910  [show with all ESTs]
    Unigene Representative Sequence: NM_003107
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000244745(uc003ndi.3) ENST00000543472

    miRNA
    Products:             		 OriGene 3'-UTR Clone: SOX4
    Browse OriGene MicroRNA Expression Plasmids
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SOX4
    8/143 QIAGEN miScript miRNA Assays for microRNAs that regulate SOX4 (see all 143):
    hsa-miR-140-5p hsa-miR-576-3p hsa-miR-106a hsa-miR-3074-3p hsa-miR-3653 hsa-miR-519a hsa-miR-92b hsa-miR-130b
    SwitchGear 3'UTR luciferase reporter plasmid: SOX4 3' UTR sequence
    Inhib. RNA
    Products:             		Browse for Gene Knock-down Tools from EMD Millipore
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SOX4 (see all 4)
    OriGene shRNA RFP: SOX4
    OriGene siRNA: SOX4
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SOX4
    Clone
    Products:             		 OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SOX4 (see all 2)
    OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SOX4
    OriGene custom cloning services – gene synthesis, subcloning, mutagenesis, variant library, vector shuttling 
    GenScript: all cDNA clones in your preferred vector: SOX4 (NM_003107)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SOX4
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SOX4 
    Primer
    Products:            		 OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SOX4
    Browse OriGene validated miRNA SYBR primer pairs
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SOX4
      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SOX4
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SOX4

    Additional cDNA sequence: 

    AF070669.1 AF124147.1 AJ420500.1 BC072668.1 X65661.1 X70683.1 

    24 DOTS entries:

    DT.91985648  DT.450070  DT.121315380  DT.91789518  DT.216022  DT.100821915  DT.97862175  DT.92332497 
    DT.95170731  DT.100821916  DT.95170740  DT.95344267  DT.95347141  DT.100656435  DT.100821914  DT.100821926 
    DT.121315376  DT.121315397  DT.95248772  DT.91762123  DT.91794190  DT.95170735  DT.95138778  DT.95169311 

    24/531 AceView cDNA sequences (see all 531):

    AW043811 BG036643 AI809956 AI140004 BU676689 CA450125 AI336214 AW268850 
    BM719739 AW594370 AA669237 CA424133 AI274876 BM818594 AA256592 AI142435 
    BX280444 BQ432461 AA406145 AI285281 AW008626 AF124147 AA845133 AI399828 

    GeneLoc Exon Structure


    Expression
    for SOX4 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

    SOX4 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TCAAGTTCAC

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

    SOX4 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    10 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    HeartOutflow Tract CushionOutflow Tract Cushion CellsEndocardium, Neural Crest
    HeartAtrioventricular CanalAtrioventricular Canal CellsMyocardium
    Spinal CordSpinal Dorsal ColumnsDorsal Spinal Cord Progenitor CellsSpinal Cord
    BoneAutopod Long BoneBone
    BrainCerebral CortexBrain
    EyeRetinaEye
    HeartOutflow TractHeart
    LungTracheaLung
    Neural TubeTelencephalonNeural Tube
    Spinal CordSpinal Dorsal ColumnsSpinal Cord
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 3 LifeMap Cells 
    NameCategory
    Induced pluripotent stem cell line hIPS1 (Induced Pluripotent Stem Cell)Early Embryo, Fibroblast
    Induced pluripotent stem cell line hIPS2 (Induced Pluripotent Stem Cell)Early Embryo, Fibroblast
    PureStem™ progenitor SM22 (Embryonic Progenitor Cell)

    See SOX4 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SOX4

    SOURCE GeneReport for Unigene cluster: Hs.643910

    UniProtKB/Swiss-Prot: SOX4_HUMAN, Q06945
    Tissue specificity: Testis, brain, and heart

        SABiosciences Expression via Pathway-Focused PCR Arrays including SOX4: 
              TGFB/BMP Signaling Pathway in human mouse rat
              TGFB Signaling Targets in human mouse rat
              Prostate Cancer in human mouse rat
              Cardiotoxicity in human mouse rat

    Primer
    Products:    		 OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SOX4
    Browse OriGene validated miRNA SYBR primer pairs
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SOX4
    QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SOX4
    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SOX4
    In Situ
    Assay Products:     
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SOX4

    Orthologs
    for SOX4 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 SOX4 gene from 6/19 species (see all 19)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves SOX41 SRY (sex determining region Y)-box 4 78.5(n)
    75.54(a)    		   395143  NM_204484.2  NP_989815.2 
    lizard
    (Anolis carolinensis)    		 Reptilia SOX46
    		 --
    		 81(a)
    		 1 ↔ 1
    		 4(55344072-55344509)
    African clawed frog
    (Xenopus laevis)    		 Amphibia MGC688802 hypothetical protein MGC68880 83.4(n)    BC059296.1 
    zebrafish
    (Danio rerio)    		 Actinopterygii BC064664.12   -- 82.36(n)   393875  BC064664.1 
    fruit fly
    (Drosophila melanogaster)    		 Insecta Sox143 DNA bending 40(a)   60A16   --
    worm
    (Caenorhabditis elegans)    		 Secernentea sox-46
    sem-26
    		 SEx Muscle abnormal family member (sem-2)
    		 24(a)
    21(a)
    		 possible ortholog
    1 ↔ many
    		 X(3505427-3506378)
    I(5205106-5215221)


    ENSEMBL Gene Tree for SOX4 (if available)
    TreeFam Gene Tree for SOX4 (if available) 

    Paralogs
    for SOX4 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SOX4 gene
    SOX132  SOX22  SOX12  SOX142  SOX32  SOX92  SOX122  SOX152  
    SOX182  SOX52  ENSG000002587242  SOX212  SOX62  SOX172  SOX112  SOX82  
    SRY2  SOX102  SOX72  
    2 SIMAP similar genes for SOX4 using alignment to 1 protein entry:     SOX4_HUMAN:
    SOX10    SOX11

    SOX4 for paralogs           About GeneDecksing



    Genomic Variants
    for SOX4 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

    10/109 NCBI SNPs in SOX4 are shown (see all 109)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 6 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1883321431,2
    		--21592213(+) GGCAGC/GGTTGC 1 -- us2k10--------
    rs1431408571,2
    		--21592479(+) GTCTCA/GAACTC 1 -- us2k10--------
    rs1812162691,2
    		--21592528(+) TGCTGA/GGATTA 1 -- us2k10--------
    rs1134446811,2
    		--21592607(+) TTGAAC/TAACAT 1 -- us2k11Minor allele frequency- T:0.50CSA 2
    rs1864940931,2
    		--21592737(+) ACCCTA/CTATAA 1 -- us2k10--------
    rs1499186511,2
    		--21593095(+) CTATAC/TAAAAC 1 -- us2k10--------
    rs1130926401,2
    		--21593177(+) GGGCTG/ATGCAG 1 -- us2k11Minor allele frequency- A:0.00CSA 1
    rs1399532941,2
    		--21593289(+) CAGCAC/TAAAAA 1 -- us2k10--------
    rs1916980511,2
    		--21593307(+) GAAGGA/GATTTA 1 -- us2k10--------
    rs1161292091,2
    		F,--21593592(+) CGCCCC/TGTTCC 1 -- us2k11Minor allele frequency- T:0.02WA 118

    HapMap Linkage Disequilibrium report for SOX4 (21593972 - 21598850 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for SOX4: --
    Human Gene Mutation Database (HGMD): SOX4

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    Disorders / Diseases
    for SOX4 gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    SOX4 for disorders           About GeneDecksing

    OMIM gene information: 184430    OMIM disorders: --

    20/32 diseases for SOX4 (see all 32):    About MalaCards
    splenic marginal zone lymphoma    adenoid cystic carcinoma    mantle cell lymphoma    cleft lip
    cleft palate    adenoiditis    hepatocellular carcinoma    ependymoma
    endometrial adenocarcinoma    bladder carcinoma    hepatitis b    adenocarcinoma
    breast cancer    endometrial cancer    lung adenocarcinoma    leiomyoma
    carcinoma    medulloblastoma    colon carcinoma    gastric cancer

    6 Novoseek disease relationships for SOX4 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    carcinoma adenoid cystic 36.8 1 16636670 (1)
    adenocarcinoma 28.4 1 15665292 (1)
    cancer 23.3 16 19147588 (2), 19887623 (2), 15522200 (1), 19153074 (1) (see all 9)
    tumors 21.5 14 17922414 (3), 19234109 (2), 19887623 (2), 18577562 (1) (see all 8)
    hepatocellular carcinoma 7.08 3 20423819 (2), 12216117 (1)
    breast cancer 3.48 5 10343288 (2), 9129154 (1), 20331975 (1)

    Human Genome Epidemiology (HuGE) Navigator: SOX4 (3 documents)

    Export disorders for SOX4 gene to outside databases

    Publications
    for SOX4 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 SOX4 gene, integrated from 9 sources (see all 101):
    (articles sorted by number of sources associating them with SOX4)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Characterization and mapping of the human SOX4 gene. (PubMed id 8268656)1, 2, 3 Farr C.J....Goodfellow P.N. (1993)
    2. Ubc9 interacts with SOX4 and represses its transcriptional activity. (PubMed id 16631117)1, 2, 9 Pan X.... Zhang X. (2006)
    3. Assignment of Sox4 to mouse chromosome 13 bands A3-A5 by fluorescence in situ hybridization; refinement of the human SOX4 location t o 6p22.3 and of SOX20 to chromosome 17p12.3. (PubMed id 9730625)1, 3, 9 Critcher R....Farr C.J. (1998)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    5. The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)1, 2 Mungall A.J.... Beck S. (2003)
    6. A conserved family of genes related to the testis determining gene, SRY. (PubMed id 1614875)1, 2 Denny P.... Ashworth A. (1992)
    7. SOX4 expression in bladder carcinoma: clinical aspects and in vitro functional characterization. (PubMed id 16585165)1, 9 Aaboe M....Orntoft T. (2006)
    8. Epigenetic repression of microRNA-129-2 leads to over expression of SOX4 in gastric cancer. (PubMed id 20331975)1, 9 Shen R....Cheng S. (2010)
    9. Genome-wide promoter analysis of the SOX4 transcriptional network in prostate cancer cells. (PubMed id 19147588)1, 9 Scharer C.D....Moreno C.S. (2009)
    10. [Expression of SOX4 gene and early recurrence of hepa tocellular carcinoma: their relationship and the clinical significance] (PubMed id 20423819)1, 9 Zheng J.H....Wang G.Y. (2010)

    External Searches for SOX4 gene

    (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)

    Genome Databases showing SOX4 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 6659 HGNC: 11200 AceView: SOX4 Ensembl:ENSG00000124766 euGenes: HUgn6659
    ECgene: SOX4 H-InvDB: SOX4

    Other Databases showing SOX4 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing SOX4 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 SOX4 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for SOX4 Genetics and Cytogenetics in Oncology and Haematology

    Intellectual Property
    for SOX4 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for SOX4 gene:
    Search GeneIP for patents involving SOX4

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



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