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

FOXA1 Gene

protein-coding   GIFtS: 62
GCID: GC14M038059

forkhead box A1

(Previous names: hepatocyte nuclear factor 3, alpha )
(Previous symbol: HNF3A)
 Explore 21 diseases affiliated with
FOXA1 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for FOXA1    

Aliases
for FOXA1 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Forkhead Box A11 2     HNF-3A2 3
HNF3A1 2 3 5     TCF-3A2 3
Forkhead Box Protein A12 3     TCF3A2 3
Transcription Factor 3A2 3     Hepatocyte Nuclear Factor 3, Alpha1
HNF-3-Alpha1     Hepatocyte Nuclear Factor 3-Alpha2

External Ids:    HGNC: 50211   Entrez Gene: 31692   Ensembl: ENSG000001295147   OMIM: 6022945   UniProtKB: P553173   

Export aliases for FOXA1 gene to outside databases

Previous GC identifers: GC14M035439 GC14M031916 GC14M036049 GC14M037128 GC14M018173


Summaries
for FOXA1 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 FOXA1:
This gene encodes a member of the forkhead class of DNA-binding proteins. These hepatocyte nuclear factors are
transcriptional activators for liver-specific transcripts such as albumin and transthyretin, and they also interact
with chromatin. Similar family members in mice have roles in the regulation of metabolism and in the differentiation
of the pancreas and liver. (provided by RefSeq, Jul 2008)

UniProtKB/Swiss-Prot: FOXA1_HUMAN, P55317
Function: Transcription factor that is involved in embryonic development, establishment of tissue-specific gene
expression and regulation of gene expression in differentiated tissues. Is thought to act as a 'pioneer' factor
opening the compacted chromatin for other proteins through interactions with nucleosomal core histones and thereby
replacing linker histones at target enhancer and/or promoter sites. Binds DNA with the consensus sequence
5'-[AC]A[AT]T[AG]TT[GT][AG][CT]T[CT]-3' (By similarity). Proposed to play a role in translating the epigenetic
signatures into cell type-specific enhancer-driven transcriptional programs. Its differential recruitment to chromatin
is dependent on distribution of histone H3 methylated at 'Lys-5' (H3K4me2) in estrogen-regulated genes. Involved in
the development of multiple endoderm-derived organ systems such as liver, pancreas, lung and prostate; FOXA1 and FOXA2
seem to have at least in part redundant roles (By similarity). Modulates the transcriptional activity of nuclear
hormone receptors. Is involved in ESR1-mediated transcription; required for ESR1 binding to the NKX2-1 promoter in
breast cancer cells; binds to the RPRM promter and is required for the estrogen-induced repression of RPRM. Involved
in regulation of apoptosis by inhibiting the expression of BCL2. Involved in cell cycle regulation by activating
expression of CDKN1B, alone or in conjunction with BRCA1. Originally described as a transcription activator for a
number of liver genes such as AFP, albumin, tyrosine aminotransferase, PEPCK, etc. Interacts with the cis-acting
regulatory regions of these genes. Involved in glucose homeostasis

Gene Wiki entry for FOXA1


Genomic Views
for FOXA1 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_000014.8  NC_018925.1  NT_026437.12  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the FOXA1 gene promoter:
         Sp1   NRSF form 1   HTF   FOXD3   NRSF form 2   GATA-1   PPAR-alpha   FOXO4   Sox9   ATF   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 3): FOXA1 promoter sequence
   Search SABiosciences Chromatin IP Primers for FOXA1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat FOXA1


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

Entrez Gene cytogenetic band: 14q12-q13   Ensembl cytogenetic band:  14q21.1   HGNC cytogenetic band: 14q12-q13

FOXA1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FOXA1 gene location

GeneLoc information about chromosome 14         GeneLoc Exon Structure

GeneLoc location for GC14M038059:  view genomic region     (about GC identifiers)

Start:
 38,059,189 bp from pter      End:
 38,069,245 bp from pter
Size:
 10,057 bases      Orientation:
 minus strand

Proteins
for FOXA1 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: FOXA1_HUMAN, P55317 (See protein sequence)
Recommended Name: Hepatocyte nuclear factor 3-alpha  
Size: 472 amino acids; 49148 Da
Subunit: Binds DNA as a monomer (By similarity). Interacts with FOXA2. Interacts with NKX2-1. Interacts with HDAC7.
Interacts with the histone H3-H4 heterodimer. Associates with nucleosomes containing histone H2A. Interacts with AR.
Interacts with NR0B2 (By similarity)
Subcellular location: Nucleus
Secondary accessions: B2R9H6 Q9H2A0

Explore the universe of human proteins at neXtProt for FOXA1: NX_P55317

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_P55317

    • FOXA1 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_004487.2  
    ENSEMBL proteins: 
     ENSP00000250448   ENSP00000451704   ENSP00000440178  

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    Novus Biologicals FOXA1 Proteins
    Novus Biologicals FOXA1 Lysate
    Browse Sino Biological Recombinant Proteins
    Browse ProSpec Recombinant Proteins
    Uscn Proteins for FOXA1

    Gene Ontology (GO): 2 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--


    FOXA1 for ontologies           About GeneDecksing



    FOXA1 Antibody Products: 
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    ThermoFisher Antibodies for FOXA1

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    Uscn ELISAs and CLIAs for FOXA1

    Protein Domains /
    Families
    for FOXA1 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    FOXA1 for domains           About GeneDecksing

    5 InterPro domains/families:
     IPR011991 WHTH_trsnscrt_rep_DNA-bd_dom
     IPR018533 Forkhead_box_C
     IPR018122 TF_fork_head_CS
     IPR013638 Fork-head_N
     IPR001766 TF_fork_head

    Graphical View of Domain Structure for InterPro Entry P55317

    ProtoNet protein and cluster: P55317

    1 Blocks protein family: IPB013638 Fork-head N-terminal

    UniProtKB/Swiss-Prot: FOXA1_HUMAN, P55317
    Similarity: Contains 1 fork-head DNA-binding domain


    Function
    for FOXA1 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: FOXA1_HUMAN, P55317
    Function: Transcription factor that is involved in embryonic development, establishment of tissue-specific gene
    expression and regulation of gene expression in differentiated tissues. Is thought to act as a 'pioneer' factor
    opening the compacted chromatin for other proteins through interactions with nucleosomal core histones and thereby
    replacing linker histones at target enhancer and/or promoter sites. Binds DNA with the consensus sequence
    5'-[AC]A[AT]T[AG]TT[GT][AG][CT]T[CT]-3' (By similarity). Proposed to play a role in translating the epigenetic
    signatures into cell type-specific enhancer-driven transcriptional programs. Its differential recruitment to chromatin
    is dependent on distribution of histone H3 methylated at 'Lys-5' (H3K4me2) in estrogen-regulated genes. Involved in
    the development of multiple endoderm-derived organ systems such as liver, pancreas, lung and prostate; FOXA1 and FOXA2
    seem to have at least in part redundant roles (By similarity). Modulates the transcriptional activity of nuclear
    hormone receptors. Is involved in ESR1-mediated transcription; required for ESR1 binding to the NKX2-1 promoter in
    breast cancer cells; binds to the RPRM promter and is required for the estrogen-induced repression of RPRM. Involved
    in regulation of apoptosis by inhibiting the expression of BCL2. Involved in cell cycle regulation by activating
    expression of CDKN1B, alone or in conjunction with BRCA1. Originally described as a transcription activator for a
    number of liver genes such as AFP, albumin, tyrosine aminotransferase, PEPCK, etc. Interacts with the cis-acting
    regulatory regions of these genes. Involved in glucose homeostasis

    miRNA
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    hsa-miR-21* hsa-miR-548j hsa-miR-3607-3p hsa-miR-106a hsa-miR-200a hsa-miR-30d hsa-miR-519a hsa-miR-141
    SwitchGear 3'UTR luciferase reporter plasmid: FOXA1 3' UTR sequence
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for FOXA1 (see all 7)
    OriGene shRNA RFP: FOXA1
    OriGene siRNA: FOXA1
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat FOXA1

    Gene Editing
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    Clone
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    Search LifeMap BioReagents cell lines for FOXA1

    In Situ Assay
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    Gene Ontology (GO): 5/11 molecular function terms (GO ID links to tree view) (see all 11):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001077RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription ISS--
    GO:0003677DNA binding IDA9931457
    GO:0003690double-stranded DNA binding IBA--
    GO:0003700sequence-specific DNA binding transcription factor activity TAS8652662
    GO:0003705RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity IBA--


    FOXA1 for ontologies           About GeneDecksing


    3 GenomeRNAi human phenotypes for FOXA1:
     Enable proliferation in B-Raf   G0/1 arrest  Increased G1 DNA content 

    Animal Models:
         9 MGI mutant phenotypes (inferred from 4 alleles) (MGI details for Foxa1):
     cellular  digestive/alimentary  endocrine/exocrine gland  growth/size  homeostasis/metabolism 
     immune system  integument  mortality/aging  tumorigenesis 

    FOXA1 for phenotypes           About GeneDecksing


    Pathways & Interactions
    for FOXA1 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
    1Selected targets of ESR1
    		Selected targets of ESR11.00
    2Direct p53 effectors
    		Direct p53 effectors1.00
    3FOXA2 and FOXA3 transcription factor networks
    		FOXA2 and FOXA3 transcription factor networks1.00
    4FOXA1 transcription factor network
    		FOXA1 transcription factor network1.00
    5HNF1A-dependent synthesis of FOXA3
    		FOXA transcription factor networks0.33

    Pathway sources
    See GeneCards unified pathways
    Show all pathways

    1 EMD Millipore Pathway for FOXA1
        Selected targets of ESR1


    4 BioSystems Pathways for FOXA1 
        FOXA1 transcription factor network
    Direct p53 effectors
    FOXA2 and FOXA3 transcription factor networks
    FOXA transcription factor networks



    FOXA1 for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for FOXA1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    5/41 Interacting proteins for FOXA1 (P553172, 3 ENSP000002504484) via UniProtKB, MINT, STRING, and/or I2D (see all 41)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ARP102753, ENSP000003638224I2D: score=2 STRING: ENSP00000363822
    HDAC7Q8WUI43, ENSP000000800594I2D: score=1 STRING: ENSP00000080059
    ONECUT1Q9UBC03, ENSP000003026304I2D: score=1 STRING: ENSP00000302630
    FOXA2Q9Y2612, ENSP000003159554MINT-7040448 STRING: ENSP00000315955
    HIST3H3Q166953, ENSP000003556574I2D: score=1 STRING: ENSP00000355657
    About this table

    Gene Ontology (GO): 5/29 biological process terms (GO ID links to tree view) (see all 29):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter ----
    GO:0006338chromatin remodeling ISS--
    GO:0006351transcription, DNA-dependent ----
    GO:0006355regulation of transcription, DNA-dependent ----
    GO:0007389pattern specification process IBA--


    FOXA1 for ontologies           About GeneDecksing



    Drugs & Compounds
    for FOXA1 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 FOXA1
    Search CenterWatch for drugs/clinical trials and news about FOXA1 

    Transcripts
    for FOXA1 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 FOXA1 gene: 
    NM_004496.3  

    Unigene Cluster for FOXA1:

    Forkhead box A1
    Hs.163484  [show with all ESTs]
    Unigene Representative Sequence: NM_004496
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000250448(uc010tpz.2 uc001wuf.3) ENST00000545425 ENST00000553751
    ENST00000554607 ENST00000557418 ENST00000540786

    miRNA
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    8/61 QIAGEN miScript miRNA Assays for microRNAs that regulate FOXA1 (see all 61):
    hsa-miR-21* hsa-miR-548j hsa-miR-3607-3p hsa-miR-106a hsa-miR-200a hsa-miR-30d hsa-miR-519a hsa-miR-141
    SwitchGear 3'UTR luciferase reporter plasmid: FOXA1 3' UTR sequence
    Inhib. RNA
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    OriGene shRNA RFP: FOXA1
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    Clone
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    Primer
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    Additional cDNA sequence: 

    AK304119.1 AK313785.1 AK316360.1 BC033890.1 U39840.1 

    5 DOTS entries:

    DT.91827861  DT.120785835  DT.40232277  DT.446153  DT.202876 

    24/95 AceView cDNA sequences (see all 95):

    BX105480 AI269801 CB851712 BI819070 BX089258 AI347950 BE222309 BF448367 
    BU608051 AI318364 AA613671 AI694151 AA991871 CF138795 BF195266 BE348594 
    AA693692 BM854964 CF134672 BX110546 AI073898 BF000514 AI380832 AU119910 

    GeneLoc Exon Structure


    Expression
    for FOXA1 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

    FOXA1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GTTTATTCTT

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

    FOXA1 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    10/11 LifeMap In Vivo Development Anatomical Compartments/Cells (see all 11) 
    Tissue Anatomical Compartment CellCategory (developmental path)
    Gut TubeForegutForegut Endoderm CellsEndoderm
    Gut TubeGut TubePrimitive Gut Endoderm CellsEndoderm
    Gut TubeVentral Foregut EndodermHepatic Endoderm CellsLiver
    Gut TubeVentral Foregut EndodermMultipotent Lung Progenitor CellsLung
    Gut TubeVentral Foregut EndodermVentral Foregut Endoderm CellsEndoderm
    LiverLiver BudHepatoblastsLiver
    LiverLiver LobuleHepatocytesLiver
    LiverLiver LobuleMature HepatocytesLiver
    PancreasDorsal Pancreatic BudAlpha Progenitor CellsPancreas
    PancreasIslets of LangerhansMature Beta CellsPancreas
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 8 LifeMap Cells 
    NameCategory
    PureStem™ progenitor RASMO12 (Embryonic Progenitor Cell)
    Endoderm progenitor-like cells (Generation and expan...)
    Pancreatic endoderm/endocrine precursor-like cells (A scalable, suspensi...)
    Posterior foregut-like cells (A scalable, suspensi...)
    Primitive gut tube-like cells (A scalable, suspensi...)
    GABA neuron-like cells (Generation of motor ...)Brain
    N2/LSB/S/F8/CHIR-induced cells (Generation of midbra...)
    Midbrain dopaminergic-like neurons (Generation of midbra...)

    See FOXA1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for FOXA1

    SOURCE GeneReport for Unigene cluster: Hs.163484

    UniProtKB/Swiss-Prot: FOXA1_HUMAN, P55317
    Tissue specificity: Highly expressed in prostate and ESR1-positive breast tumors. Overexpressed in esophageal and lung
    adenocarcinomas

        SABiosciences Expression via Pathway-Focused PCR Arrays including FOXA1: 
              Estrogen Receptor Signaling in human mouse rat
              Cell Lineage Identification in human mouse rat
              Stem Cell Transcription Factors in human mouse rat
              Breast Cancer in human mouse rat

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    In Situ
    Assay Products:     
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    Orthologs
    for FOXA1 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 FOXA1 gene from 5/17 species (see all 17)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    lizard
    (Anolis carolinensis)    		 Reptilia FOXA16
    		 --
    		 62(a)
    		 1 ↔ 1
    		 1(25574603-25581370)
    African clawed frog
    (Xenopus laevis)    		 Amphibia foxa1-prov2 forkhead box A1 80.43(n)    BC047130.1 
    zebrafish
    (Danio rerio)    		 Actinopterygii foxa12 forkhead box A1 80.57(n)   30541  BC056569.1 
    fruit fly
    (Drosophila melanogaster)    		 Insecta fkh6
    		 fork head
    		 24(a)
    		 1 → many
    		 3R(24406805-24410834)
    worm
    (Caenorhabditis elegans)    		 Secernentea pha-46
    		 Defective pharyngeal development protein 4
    		 20(a)
    		 1 → many
    		 V(20752905-20760272)


    ENSEMBL Gene Tree for FOXA1 (if available)
    TreeFam Gene Tree for FOXA1 (if available) 

    Paralogs
    for FOXA1 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for FOXA1 gene
    FOXF12  FOXA22  FOXD4L12  FOXF22  FOXC22  FOXB12  FOXI22  FOXE32  
    FOXC12  FOXD4L22  FOXQ12  FOXD4L32  FOXA32  FOXD12  FOXD32  FOXD4L52  
    FOXD4L42  FOXE12  FOXL12  FOXB22  FOXI12  FOXD4L62  FOXS12  FOXD22  
    FOXL22  FOXD42  
    9 SIMAP similar genes for FOXA1 using alignment to 3 protein entries:     FOXA1_HUMAN (see all proteins):
    FOXA2    FOXC1    FOXL2    FOXE3    FOXI2    FOXL1
    FOXA3    FOXB1    FOXH1

    FOXA1 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for FOXA1
    PGOHUM00000233095


    Genomic Variants
    for FOXA1 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

    10/125 NCBI SNPs in FOXA1 are shown (see all 125)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 14 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1813348641,2
    		--38058342(+) AGGATA/GGAGTT 1 -- ds50010--------
    rs1996878911,2
    		C,--38058622(+) CGGCT-/ACCCTA 1 -- ds50010--------
    rs38329461,2
    		C,--38058623(+) GGCTAC/-CCTAA 1 -- ds50012Minor allele frequency- -:0.00NA 4
    rs1157148531,2
    		F,--38058779(+) CTATCA/CGCCAC 1 -- ut311Minor allele frequency- C:0.03WA 118
    rs1995870391,2
    		C--38058924(+) GGTGTA/CAAAAA 1 -- ut310--------
    rs611783801,2
    		C--38058925(+) AAAAA-/ATGAAG 1 -- ut310--------
    rs1406116001,2
    		--38058987(+) CAACTC/TTTGGA 1 -- ut310--------
    rs101302051,2
    		C,F,H,--38059130(+) AATATC/TGTATT 1 -- ut318Minor allele frequency- T:0.03NS NA 1066
    rs1510468501,2
    		--38059373(+) TGTAAA/GGAAAA 1 -- ut310--------
    rs2009072051,2
    		--38059619(+) TACTG-/AAAAAA 1 -- ut310--------

    HapMap Linkage Disequilibrium report for FOXA1 (38059189 - 38069245 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for FOXA1
         1 CNV: 87186
    Human Gene Mutation Database (HGMD): FOXA1

    SABiosciences Cancer Mutation PCR Assays
    1 SABiosciences qBiomarker Copy Number PCR Array containing FOXA1:
    Oncogenes & Tumor Suppressor Genes 384HC
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing FOXA1
    DNA2.0 Custom Variant and Variant Library Synthesis for FOXA1

    Disorders / Diseases
    for FOXA1 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
    FOXA1 for disorders           About GeneDecksing

    OMIM gene information: 602294    OMIM disorders: --

    20/21 diseases for FOXA1 (see all 21):    About MalaCards
    mirror-image polydactyly    maturity-onset diabetes of the young    esophageal squamous cell carcinoma    squamous cell carcinoma
    polydactyly    conjunctivitis    lung adenocarcinoma    osteoporosis
    esophagitis    pharyngitis    carcinoma    pancreatic cancer
    breast carcinoma    adenocarcinoma    prostate cancer    breast cancer
    pancreatitis    neuroblastoma    prostatitis    thyroiditis

    2 diseases from the University of Copenhagen DISEASES database for FOXA1:
    Breast cancer     Prostate cancer
    Human Genome Epidemiology (HuGE) Navigator: FOXA1 (4 documents)

    Export disorders for FOXA1 gene to outside databases

    Publications
    for FOXA1 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 FOXA1 gene, integrated from 9 sources (see all 109):
    (articles sorted by number of sources associating them with FOXA1)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Molecular cloning of the forkhead transcription factor HNF-3 alpha from a human pulmonary adenocarcinoma cell line. (PubMed id 8652662)1, 2, 3 Bingle C.D. and Gowan S. (1996)
    2. Differential binding and co-binding pattern of FOXA1 and FOXA3 and their relation to H3K4me3 in HepG2 cells revealed by ChIP-seq. (PubMed id 19919681)1, 2, 9 Motallebipour M.... Wadelius C. (2009)
    3. The hepatocyte nuclear factor 3 alpha gene, HNF3alpha (FOXA1), on chromosome band 14q13 is amplified and overexpressed in esophageal and lung adenocarcinomas. (PubMed id 12234996)1, 2, 9 Lin L....Beer D.G. (2002)
    4. Assignment of the human genes for hepatocyte nuclear factor 3-alpha, -beta, and -gamma (HNF3A, HNF3B, HNF3G) to 14q12-q13, 20p11, and 19q13.2-q13.4. (PubMed id 9119385)1, 3, 9 Mincheva A....Kaestner K.H. (1997)
    5. Histone deacetylase 7 and FoxA1 in estrogen-mediated repression of RPRM. (PubMed id 19917725)1, 2 Malik S.... Oesterreich S. (2010)
    6. Role of Foxa1 in regulation of bcl2 expression during oxidative- stress-induced apoptosis in A549 type II pneumocytes. (PubMed id 19127412)1, 2 Song L.... Xiao X. (2009)
    7. FoxA1 translates epigenetic signatures into enhancer-driven lineage- specific transcription. (PubMed id 18358809)1, 2 Lupien M.... Brown M. (2008)
    8. BRCA1 and FOXA1 proteins coregulate the expression of the cell cycle- dependent kinase inhibitor p27(Kip1). (PubMed id 16331276)1, 2 Williamson E.A....Koeffler H.P. (2006)
    9. Location analysis of estrogen receptor alpha target promoters reveals that FOXA1 defines a domain of the estrogen response. (PubMed id 16087863)1, 2 Laganiere J....Giguere V. (2005)
    10. 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)

    External Searches for FOXA1 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 FOXA1 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 3169 HGNC: 5021 AceView: FOXA1 Ensembl:ENSG00000129514 euGenes: HUgn3169
    ECgene: FOXA1 H-InvDB: FOXA1

    Other Databases showing FOXA1 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing FOXA1 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 FOXA1 Pharmacogenomics, SNPs, Pathways
    Wikipedia http://en.wikipedia.org/wiki/Hepatocyte_nuclear_factors

    Intellectual Property
    for FOXA1 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for FOXA1 gene:
    Search GeneIP for patents involving FOXA1

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



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    About This Section

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