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

FOXD4L6 Gene

protein-coding   GIFtS: 34
GCID: GC09M069199

Forkhead Box D4-Like 6

  See 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)
About This Section

Aliases
Forkhead Box D4-Like 61 2
FOXD4-Like 62 3
Forkhead Box Protein D4-Like 62

External Ids:    HGNC: 319861   Entrez Gene: 6534042   Ensembl: ENSG000002047937   UniProtKB: Q3SYB33   

Export aliases for FOXD4L6 gene to outside databases

Previous GC identifer: GC09M068489


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

GeneCards Summary for FOXD4L6 Gene: 
FOXD4L6 (forkhead box D4-like 6) is a protein-coding gene. Diseases associated with FOXD4L6 include leukemia. GO annotations related to this gene include double-stranded DNA binding and sequence-specific DNA binding. An important paralog of this gene is FOXF1.


(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_000009.11  NT_078070.3  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the FOXD4L6 gene promoter:
         TBP   C/EBPbeta   RREB-1   FOXD1   MyoD   C/EBPalpha   GATA-1   GATA-2   CHOP-10   STAT3   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for FOXD4L6

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat FOXD4L6


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

Entrez Gene cytogenetic band: 9q21.11   Ensembl cytogenetic band:  9q21.11   HGNC cytogenetic band: 9q12

FOXD4L6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FOXD4L6 gene location

GeneLoc information about chromosome 9         GeneLoc Exon Structure

GeneLoc location for GC09M069199:  view genomic region     (about GC identifiers)

Start:
69,199,480 bp from pter      End:
69,202,204 bp from pter
Size:
2,725 bases      Orientation:
minus 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: FX4L6_HUMAN, Q3SYB3 (See protein sequence)
Recommended Name: Forkhead box protein D4-like 6  
Size: 417 amino acids; 45787 Da
Subcellular location: Nucleus (By similarity)
Miscellaneous: 5 FOXD4-like proteins (FOXD4L2, FOXD4L3, FOXD4L4, FOXD4L5 and FOXD4L6) are encoded by a strongly
repeated region of the 9q12 chromosome region. They are very similar and it is therefore difficult to provide a
clear and unambiguous protein sequence. Our sequences are in agreement with HGNC nomenclature
Secondary accessions: B2RPC4 Q4V336

Explore the universe of human proteins at neXtProt for FOXD4L6: NX_Q3SYB3

Explore proteomics data for FOXD4L6 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q3SYB3

  • FOXD4L6 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    FOXD4L6 Protein Expression
    REFSEQ proteins: NP_001078945.1  
    ENSEMBL proteins: 
     ENSP00000366693  

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    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005667transcription factor complex IBA--
    GO:0005730NOT nucleolus IDA--

    FOXD4L6 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    3 InterPro protein domains:
     IPR011991 WHTH_DNA-bd_dom
     IPR018122 TF_fork_head_CS
     IPR001766 TF_fork_head

    Graphical View of Domain Structure for InterPro Entry Q3SYB3

    ProtoNet protein and cluster: Q3SYB3

    UniProtKB/Swiss-Prot: FX4L6_HUMAN, Q3SYB3
    Similarity: Contains 1 fork-head DNA-binding domain


    FOXD4L6 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

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003690double-stranded DNA binding IBA--
    GO:0003700sequence-specific DNA binding transcription factor activity ----
    GO:0003705RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity IBA--
    GO:0008134transcription factor binding IBA--
    GO:0008301DNA binding, bending IBA--
         
    FOXD4L6 for ontologies           About GeneDecksing


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    (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



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for FOXD4L6

    Gene Ontology (GO): 5/20 biological process terms (GO ID links to tree view) (see all 20):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter IBA--
    GO:0001658branching involved in ureteric bud morphogenesis IBA--
    GO:0001755neural crest cell migration IBA--
    GO:0001822kidney development IBA--
    GO:0006355regulation of transcription, DNA-dependent ----

    FOXD4L6 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
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for FOXD4L6 (FX4L6)

    Search CenterWatch for drugs/clinical trials and news about FOXD4L6 / FX4L6

    (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,
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    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 FOXD4L6 gene: 
    NM_001085476.1  

    Unigene Cluster for FOXD4L6:

    Forkhead box D4-like 6
    Hs.652377
    Unigene Representative Sequence: NM_001085476
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000377473(uc004afi.2)
    miRNA
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    Additional mRNA sequence: 

    AF343006.1 BC103887.2 BC137365.1 BC137366.1 

    3 DOTS entries:

    DT.99993643  DT.101983633  DT.121174326 

    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™, 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

    FOXD4L6 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    FOXD4L6 Expression
    About this image


    See FOXD4L6 Protein Expression from SPIRE MOPED and PaxDB
    SOURCE GeneReport for Unigene cluster: Hs.652377
        SABiosciences Custom PCR Arrays for FOXD4L6
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for FOXD4L6

    (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 FOXD4L6 gene from 3/7 species (see all 7)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    zebrafish
    (Danio rerio)
    Actinopterygii foxd56
    forkhead box D5
    35(a)
    1 → many
    8(31300987-31302137)
    fruit fly
    (Drosophila melanogaster)
    Insecta fd59A6
    forkhead domain 59A
    22(a)
    1 → many
    2R(18754044-18758229)
    worm
    (Caenorhabditis elegans)
    Secernentea unc-1306
    Protein UNC-130
    29(a)
    1 → many
    II(11281986-11283954)
            Species with no ortholog for FOXD4L6

    ENSEMBL Gene Tree for FOXD4L6 (if available)
    TreeFam Gene Tree for FOXD4L6 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for FOXD4L6 gene
    FOXD4L31 2  FOXF12  FOXA22  FOXF22  FOXD4L12  FOXC22  FOXI22  FOXB12  
    FOXE32  FOXC12  FOXD4L22  FOXA32  FOXD4L52  FOXD12  FOXD32  FOXD4L42  
    FOXL12  FOXA12  FOXE12  FOXB22  FOXI12  FOXS12  FOXD22  FOXL22  
    FOXD42  
    12 SIMAP similar genes for FOXD4L6 using alignment to 1 protein entry:     FX4L6_HUMAN:
    FOXD4L3    FOXD4L2    FOXD4L4    FOXD4L5    FOXD4L1    FOXD4
    FOXE1    FOXD2    FOXL1    FOXE3    FOXD1    FOXD3

    FOXD4L6 for paralogs           About GeneDecksing



    (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

    10/11 SNPs in FOXD4L6 are shown (see all 11)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 9 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs2014997951,2
    C--69199101(+) CAGGGC/GAAAAC 1 -- ds50010--------
    rs1998107481,2
    C--69199107(+) AAAACA/GGCCAA 1 -- ds50010--------
    rs2020683291,2
    C--69199219(+) TTTCTA/CGTTGC 1 -- ds50010--------
    rs1864626611,2
    --69199245(+) TTGTTA/TTTTTT 1 -- ds50010--------
    rs2000558851,2
    C--69199385(+) TGTTGA/GGGGGT 1 -- ds50010--------
    rs2012130241,2
    C--69199407(+) AATGGA/GGAATA 1 -- ds50010--------
    rs3746544761,2
    C--69199592(+) GGAAAA/GAACGT 1 -- ut310--------
    rs3735399971,2
    ----69199048(+) TTCACA/GAGCAG 1 -- ds50010--------
    rs3753068731,2
    ----69199285(+) TTAAA-/ATATATA 1 -- ds50010--------
    rs2011420961,2
    ----69199286(+) ATATA-/TAATTTA 1 -- ds50010--------

    HapMap Linkage Disequilibrium report for FOXD4L6 (69199480 - 69202204 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for FOXD4L6:    About this table     
    Variant IDTypeSubtypePubMed ID
    dgv135n16CNV Deletion17901297
    esv33449CNV Loss17666407
    essv17250CNV CNV17122850
    dgv2381e1CNV Complex17122850

    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    2 diseases for FOXD4L6:    About MalaCards
    leukemia    


    FOXD4L6 for disorders           About GeneDecksing


    Export disorders for FOXD4L6 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 FOXD4L6 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with FOXD4L6)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Quantitative analysis of HSP90-client interactions rev eals principles of substrate recognition. (PubMed id 22939624)1 Taipale M....Lindquist S. (2012)
    2. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (2008)
    3. DNA sequence and analysis of human chromosome 9. (PubMed id 15164053)2 Humphray S.J.... Dunham I. (2004)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
    6. FOXD4a and FOXD4b, two new winged helix transcription factors, are expressed in human leukemia cell lines. (PubMed id 12234674)1 Freyaldenhoven B.S.... Wielckens K. (2002)

    (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)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 653404 HGNC: 31986 Ensembl:ENSG00000204793 euGenes: HUgn653404 ECgene: FOXD4L6
    H-InvDB: FOXD4L6

    (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 FOXD4L6 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for FOXD4L6 gene:
    Search GeneIP for patents involving FOXD4L6

    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

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    (GIFtS: 73)
    transforming growth factor, beta 1
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