Format

Send to:

Choose Destination

Foxa1 forkhead box A1 [ Mus musculus (house mouse) ]

Gene ID: 15375, updated on 9-Jun-2018
Official Symbol
Foxa1provided by MGI
Official Full Name
forkhead box A1provided by MGI
Primary source
MGI:MGI:1347472
See related
Ensembl:ENSMUSG00000035451
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Hnf3a; Tcf3a; Hnf-3a; Tcf-3a
Expression
Biased expression in stomach adult (RPKM 30.0), colon adult (RPKM 27.6) and 9 other tissues See more
Orthologs
See Foxa1 in Genome Data Viewer
Location:
12 C1; 12 24.7 cM
Exon count:
5
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 12 NC_000078.6 (57540628..57548027, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 12 NC_000078.5 (58641618..58647108, complement)

Chromosome 12 - NC_000078.6Genomic Context describing neighboring genes Neighboring gene TAR DNA-binding protein 43 pseudogene Neighboring gene predicted gene, 20016 Neighboring gene tetratricopeptide repeat domain 6 Neighboring gene RIKEN cDNA 4921518K17 gene Neighboring gene predicted gene, 30518

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Focal Adhesion-PI3K-Akt-mTOR-signaling pathway, organism-specific biosystem (from WikiPathways)
    Focal Adhesion-PI3K-Akt-mTOR-signaling pathway, organism-specific biosystemCell-matrix adhesions play essential roles in important biological processes including cell motility, cell proliferation, cell differentiation, regulation of gene expression and cell survival. At the...
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Gene Ontology Provided by MGI

Process Evidence Code Pubs
Notch signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
alveolar secondary septum development IMP
Inferred from Mutant Phenotype
more info
PubMed 
anatomical structure formation involved in morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
anatomical structure morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chromatin organization IEA
Inferred from Electronic Annotation
more info
 
chromatin remodeling IDA
Inferred from Direct Assay
more info
PubMed 
connective tissue development IGI
Inferred from Genetic Interaction
more info
PubMed 
dorsal/ventral neural tube patterning IGI
Inferred from Genetic Interaction
more info
PubMed 
epithelial cell maturation involved in prostate gland development IMP
Inferred from Mutant Phenotype
more info
PubMed 
epithelial tube branching involved in lung morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
epithelial-mesenchymal signaling involved in prostate gland development IGI
Inferred from Genetic Interaction
more info
PubMed 
glucose homeostasis IMP
Inferred from Mutant Phenotype
more info
PubMed 
hormone metabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
lung development IGI
Inferred from Genetic Interaction
more info
PubMed 
lung epithelial cell differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
lung morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
negative regulation of epithelial to mesenchymal transition ISO
Inferred from Sequence Orthology
more info
 
negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
neuron fate specification IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
positive regulation of apoptotic process ISO
Inferred from Sequence Orthology
more info
 
positive regulation of intracellular estrogen receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
positive regulation of mitotic cell cycle ISO
Inferred from Sequence Orthology
more info
 
positive regulation of neuron differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of neuron differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of smoothened signaling pathway IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
prostate gland epithelium morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
prostate gland stromal morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of cell cycle IDA
Inferred from Direct Assay
more info
PubMed 
regulation of cell cycle IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of gene expression IGI
Inferred from Genetic Interaction
more info
PubMed 
regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
respiratory basal cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
response to estradiol ISO
Inferred from Sequence Orthology
more info
 
secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development IMP
Inferred from Mutant Phenotype
more info
PubMed 
transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
tube morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
fibrillar center ISO
Inferred from Sequence Orthology
more info
 
microvillus IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
nucleus ISO
Inferred from Sequence Orthology
more info
 
Preferred Names
hepatocyte nuclear factor 3-alpha
Names
HNF-3-alpha
fork head domain
forkhead box protein A1
hepatocyte nuclear factor 3 alpha (winged helix transcription factor)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_008259.4NP_032285.2  hepatocyte nuclear factor 3-alpha

    See identical proteins and their annotated locations for NP_032285.2

    Status: VALIDATED

    Source sequence(s)
    AC123067
    Consensus CDS
    CCDS25926.1
    UniProtKB/Swiss-Prot
    P35582
    Related
    ENSMUSP00000041118.6, ENSMUST00000044380.7
    Conserved Domains (3) summary
    smart00339
    Location:170258
    FH; FORKHEAD
    pfam08430
    Location:17169
    Forkhead_N; Forkhead N-terminal region
    pfam09354
    Location:394457
    HNF_C; HNF3 C-terminal domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000078.6 Reference GRCm38.p4 C57BL/6J

    Range
    57540628..57548027 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017314962.1XP_017170451.1  hepatocyte nuclear factor 3-alpha isoform X1

    UniProtKB/Swiss-Prot
    P35582
    Conserved Domains (3) summary
    smart00339
    Location:170258
    FH; FORKHEAD
    pfam08430
    Location:17169
    Forkhead_N; Forkhead N-terminal region
    pfam09354
    Location:394457
    HNF_C; HNF3 C-terminal domain
  2. XM_006515483.1XP_006515546.1  hepatocyte nuclear factor 3-alpha isoform X1

    See identical proteins and their annotated locations for XP_006515546.1

    UniProtKB/Swiss-Prot
    P35582
    Conserved Domains (3) summary
    smart00339
    Location:170258
    FH; FORKHEAD
    pfam08430
    Location:17169
    Forkhead_N; Forkhead N-terminal region
    pfam09354
    Location:394457
    HNF_C; HNF3 C-terminal domain
  3. XM_006515479.3XP_006515542.1  hepatocyte nuclear factor 3-alpha isoform X1

    See identical proteins and their annotated locations for XP_006515542.1

    UniProtKB/Swiss-Prot
    P35582
    Conserved Domains (3) summary
    smart00339
    Location:170258
    FH; FORKHEAD
    pfam08430
    Location:17169
    Forkhead_N; Forkhead N-terminal region
    pfam09354
    Location:394457
    HNF_C; HNF3 C-terminal domain
  4. XM_006515481.2XP_006515544.1  hepatocyte nuclear factor 3-alpha isoform X1

    See identical proteins and their annotated locations for XP_006515544.1

    UniProtKB/Swiss-Prot
    P35582
    Conserved Domains (3) summary
    smart00339
    Location:170258
    FH; FORKHEAD
    pfam08430
    Location:17169
    Forkhead_N; Forkhead N-terminal region
    pfam09354
    Location:394457
    HNF_C; HNF3 C-terminal domain
Support Center