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FOXD4L4 Gene

protein-coding   GIFtS: 36
GCID: GC09M070427          (predicted)

Forkhead Box D4-Like 4

  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)
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Aliases
Forkhead Box D4-Like 41 2     bA460E7.22
Forkhead Box Protein D4B2 3     Forkhead Box Protein D4-Like 42
Myeloid Factor-Gamma2 3     Winged Helix Factor-12
FOXD4-Like 42 3     Winged Helix Transcription Factor Beta2
FOXD4b2     FOXD4B3

External Ids:    HGNC: 237621   Entrez Gene: 3493342   Ensembl: ENSG000001846597   UniProtKB: Q8WXT53   

Export aliases for FOXD4L4 gene to outside databases

Previous GC identifers: GC00U921578 GC09U900683 GC09M067938 GC09M069666


(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 FOXD4L4 Gene:
FOXD4L4 (forkhead box D4-like 4) is a protein-coding gene. Diseases associated with FOXD4L4 include tonsillitis, and cerebritis. GO annotations related to this gene include sequence-specific DNA binding and sequence-specific DNA binding transcription factor activity. An important paralog of this gene is FOXA2.


(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:
NC_000009.12  NC_018920.2  NT_078055.5  
Regulatory elements:
   Regulatory transcription factor binding sites in the FOXD4L4 gene promoter:
         TBP   USF1   Tal-1   USF-1   STAT3   FOXD1   USF-1:USF-2   E47   GATA-1   GATA-2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for FOXD4L4

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat FOXD4L4


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: 9q13

FOXD4L4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FOXD4L4 gene location

GeneLoc information about chromosome 9         GeneLoc Exon Structure

GeneLoc location for GC09M070427:  view genomic region     (about GC identifiers)

Start:
70,426,623 bp from pter      End:
70,429,731 bp from pter
Size:
3,109 bases      Orientation:
minus strand

(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, 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., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: FX4L4_HUMAN, Q8WXT5 (See protein sequence)
Recommended Name: Forkhead box protein D4-like 4  
Size: 416 amino acids; 45892 Da
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: Q5RIB4

Explore the universe of human proteins at neXtProt for FOXD4L4: NX_Q8WXT5

Explore proteomics data for FOXD4L4 at MOPED


See FOXD4L4 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_954714.2  
ENSEMBL proteins: 
 ENSP00000366630  

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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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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 Q8WXT5

ProtoNet protein and cluster: Q8WXT5

UniProtKB/Swiss-Prot: FX4L4_HUMAN, Q8WXT5
Similarity: Contains 1 fork-head DNA-binding domain


FOXD4L4 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,
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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): Selected molecular function terms (see all 6):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003690double-stranded DNA binding ----
GO:0003700sequence-specific DNA binding transcription factor activity IEA--
GO:0003705RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity ----
GO:0008134transcription factor binding ----
GO:0008301DNA binding, bending ----
     
FOXD4L4 for ontologies           About GeneDecksing


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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
FX4L4_HUMAN, Q8WXT5: Nucleus (By similarity)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
nucleus3
cytosol2

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

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

FOXD4L4 for ontologies           About GeneDecksing


(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 FOXD4L4
Interactions:

    Search GeneGlobe Interaction Network for FOXD4L4

STRING Interaction Network Preview (showing 3 interactants - click image to see more details)

3 Interacting proteins for FOXD4L4 (ENSP000003666304) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
TIMM13ENSP000002155704STRING: ENSP00000215570
TIMM8AENSP000003619934STRING: ENSP00000361993
--ENSP000002803544STRING: ENSP00000280354
About this table

Gene Ontology (GO): Selected biological process terms (see all 18):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0000122negative regulation of transcription from RNA polymerase II promoter ----
GO:0001658branching involved in ureteric bud morphogenesis ----
GO:0001755neural crest cell migration ----
GO:0001822kidney development ----
GO:0006351transcription, DNA-templated IEA--

FOXD4L4 for ontologies           About GeneDecksing



(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 Tocris compounds for FOXD4L4 (FX4L4)



(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,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for FOXD4L4 gene: 
NM_199244.2  

Unigene Cluster for FOXD4L4:

Forkhead box D4-like 4
Hs.534644
Unigene Representative Sequence: NM_199244
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000377413(uc004afx.1)
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2 DOTS entries:

DT.121145708  DT.121202188 

1 AceView cDNA sequence:

NM_199244 

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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FOXD4L4 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
FOXD4L4 Expression
About this image

FOXD4L4 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

FOXD4L4 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.534644
    Custom PCR Arrays for FOXD4L4
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In Situ
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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 FOXD4L4 gene from Selected species (see all 7)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
platypus
(Ornithorhynchus anatinus)
Mammalia --
Uncharacterized protein
49(a)
1 → many
Contig530(367747-368893)
lizard
(Anolis carolinensis)
Reptilia --
Uncharacterized protein
65(a)
1 → many
2(49994144-49994639)
zebrafish
(Danio rerio)
Actinopterygii foxd56
forkhead box D5
38(a)
many ↔ many
8(31300987-31302138) ENSDARG00000042485
fruit fly
(Drosophila melanogaster)
Insecta fd59A6
forkhead domain 59A
25(a)
1 → many
2R(18754044-18758229)
worm
(Caenorhabditis elegans)
Secernentea unc-1306
Protein UNC-130 (unc-130) mRNA, complete cds
30(a)
1 → many
II(11281986-11283954) WBGene00006853


ENSEMBL Gene Tree for FOXD4L4 (if available)
TreeFam Gene Tree for FOXD4L4 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for FOXD4L4 gene
FOXD4L51 2  FOXA22  FOXD4L12  FOXC22  FOXI22  FOXB12  FOXE32  FOXC12  
FOXD4L22  FOXD4L32  FOXA32  FOXD12  FOXD32  FOXA12  FOXE12  FOXL12  
FOXB22  FOXI12  FOXD4L62  FOXS12  FOXD22  FOXL22  FOXD42  
12 SIMAP similar genes for FOXD4L4 using alignment to 1 protein entry:     FX4L4_HUMAN:
FOXD4L2    FOXD4L5    FOXD4L3    FOXD4L6    FOXD4L1    FOXD4
FOXE1    FOXD3    FOXL1    FOXD2    FOXE3    FOXD1

FOXD4L4 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), 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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1 SNPs for FOXD4L4    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 9 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs3722179291,2
----70430391(+) GTTGG-/TTAT  
        
TTATT
1 -- us2k10--------

HapMap Linkage Disequilibrium report for FOXD4L4 (70426623 - 70429731 bp)

Structural Variations
     Database of Genomic Variants (DGV) Selected variations for FOXD4L4 (see all 12):    About this table    
Variant IDTypeSubtypePubMed ID
dgv135n16CNV Deletion17901297
esv2738445CNV Deletion23290073
nsv471467CNV Duplication19718026
esv33449CNV Loss17666407
esv23416CNV Gain19812545
dgv8190n71CNV Gain+Loss21882294
nsv8518CNV Gain+Loss18304495
essv2899CNV CNV17122850
nsv469665CNV Complex16826518
dgv2383e1CNV Complex17122850

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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.)
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5 diseases for FOXD4L4:    About MalaCards
tonsillitis    cerebritis    thyroiditis    leukemia
endotheliitis


FOXD4L4 for disorders           About GeneDecksing


Export disorders for FOXD4L4 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 FOXD4L4 gene integrated from 10 sources:
(articles sorted by number of sources associating them with FOXD4L4)
    Utopia: connect your pdf to the dynamic
world of online information

  1. FOXD4a and FOXD4b, two new winged helix transcription factors, are expressed in human leukemia cell lines. (PubMed id 12234674)1, 2 Freyaldenhoven B.S.... Wielckens K. (Gene 2002)
  2. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (amp 2008)
  3. DNA sequence and analysis of human chromosome 9. (PubMed id 15164053)2 Humphray S.J.... Dunham I. (Nature 2004)
  4. Gene content and function of the ancestral chromosome fusion site in human chromosome 2q13-2q14.1 and paralogous regions. (PubMed id 12421752)1 Fan Y.... Trask B.J. (Genome Res. 2002)
  5. The winged-helix protein brain factor 1 interacts with groucho and hes proteins to repress transcription. (PubMed id 11238932)9 Yao J....Stifani S. (Mol. Cell. Biol. 2001)

(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: 349334 HGNC: 23762 AceView: FOXD4b Ensembl:ENSG00000184659 euGenes: HUgn349334
ECgene: FOXD4L4 H-InvDB: FOXD4L4

(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 FOXD4L4 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 FOXD4L4 gene:
Search GeneIP for patents involving FOXD4L4

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, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, 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 inGenious Targeting Laboratory, genOway)
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