Foxc1 Gene Summary [Mouse]

Enables DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and promoter-specific chromatin binding activity. Involved in several processes, including cell surface receptor signaling pathway; endochondral ossification; and regulation of transcription by RNA polymerase II. Acts upstream of or within several processes, including cell surface receptor signaling pathway; circulatory system development; and collagen fibril organization. Located in nucleus. Is expressed in several structures, including alimentary system; central nervous system; embryo mesenchyme; heart; and sensory organ. Used to study buphthalmos. Human ortholog(s) of this gene implicated in Axenfeld-Rieger syndrome; Axenfeld-Rieger syndrome type 3; anterior segment dysgenesis 3; and glaucoma. Orthologous to human FOXC1 (forkhead box C1). [provided by Alliance of Genome Resources, Jul 2025]

Details

Type
Protein Coding
Official Symbol
Foxc1
Official Name
forkhead box C1 [Source:MGI Symbol;Acc:MGI:1347466]
Ensembl ID
ENSMUSG00000050295
Bio databases IDs NCBI: 17300 Ensembl: ENSMUSG00000050295
Aliases forkhead box C1
Synonyms ARA, ASGD3, ch, Fkh1, FKHL7, FLJ11796, FLJ11796 FIS, forkhead box C1, FREAC-3, frkhda, IGDA, IHG1, IRID1, Mf1, Mf4, RIEG3
Species
Mouse, Mus musculus
OrthologiesHumanRat

Protein Domains

A protein domain is a distinct structural or functional region within a protein that can evolve, function, and exist independently of the rest of the protein chain. These domains in mouse Foxc1 often fold into stable, three-dimensional structures and are associated with specific biological functions, such as binding to DNA, other proteins, or small molecules.
  • RNA polymerase II transcription regulatory region sequence-specific binding transcriptional activator activity
  • transcription regulator
  • FH_FOX
  • nucleic acid binding
  • DNA bending protein
  • transcription factor binding
  • chromatin binding
  • protein binding
  • sequence-specific DNA binding
  • DNA binding
  • Forkhead domain
  • FORKHEAD
  • RNA polymerase II transcription factor activity, sequence-specific DNA binding
  • double-stranded DNA binding
  • transcription factor activity

Pathways

Biological processes and signaling networks where the Foxc1 gene in mouse plays a role, providing insight into its function and relevance in health or disease.

Top Findings

The most significant associations for this gene, including commonly observed domains, pathway involvement, and functional highlights based on current data.
regulates
regulated by
  • MIR138
  • fat-1
  • PAGA
  • Lethal toxin
  • beta-estradiol
  • MESP2
  • FLNA
  • mir-204 (includes others)
  • LY294002
  • torkinib
disease
  • epithelial cancer
  • rheumatoid arthritis
  • epithelial neoplasia
  • pelvic cancer
  • abdominal cancer
  • urogenital cancer
  • cancer
  • breast cancer
  • metastasis
  • axenfeld-rieger syndrome type 3
phenotypes
  • abnormal Reichert's cartilage morphology
  • abnormal Wolffian duct morphology
  • abnormal anterior eye segment morphology
  • abnormal aortic valve cusp morphology
  • abnormal aortic valve morphology
  • abnormal aqueous drainage system morphology
  • abnormal arytenoid cartilage morphology
  • abnormal axial skeleton morphology
  • abnormal basement membrane morphology
  • abnormal bone ossification
  • abnormal brain development
  • abnormal brain meninges morphology
  • abnormal brain ventricular system morphology
  • abnormal canal of Schlemm morphology
  • abnormal carpal bone morphology
  • abnormal cartilage development
  • abnormal cartilage morphology
  • abnormal cerebellum development
  • abnormal cerebral aqueduct morphology
  • abnormal cerebral cortex morphology
  • abnormal cervical atlas morphology
  • abnormal cervical vertebrae morphology
  • abnormal choroid plexus morphology
  • abnormal ciliary process morphology
  • abnormal cornea morphology
  • abnormal corneal endothelium morphology
  • abnormal corneal epithelium morphology
  • abnormal cortical marginal zone morphology
  • abnormal craniofacial bone morphology
  • abnormal craniofacial development
  • abnormal cricoid cartilage morphology
  • abnormal deltoid tuberosity morphology
  • abnormal exorbital lacrimal gland morphology
  • abnormal eye morphology
  • abnormal femur morphology
  • abnormal fibula morphology
  • abnormal foramen magnum morphology
  • abnormal forebrain development
  • abnormal forebrain morphology
  • abnormal fourth pharyngeal arch artery morphology
  • abnormal fourth ventricle morphology
  • abnormal frontal bone morphology
  • abnormal hindlimb morphology
  • abnormal hippocampus morphology
  • abnormal humerus morphology
  • abnormal hyoid bone morphology
  • abnormal iridocorneal angle
  • abnormal iris morphology
  • abnormal iris pigment epithelium
  • abnormal kidney arterial blood vessel morphology
  • abnormal kidney blood vessel morphology
  • abnormal kidney development
  • abnormal kidney morphology
  • abnormal kidney venous blood vessel morphology
  • abnormal lacrimal gland branching morphogenesis
  • abnormal lacrimal gland morphology
  • abnormal lacrimal gland physiology
  • abnormal laryngeal cartilage morphology
  • abnormal lateral ventricle morphology
  • abnormal lens morphology
  • abnormal limb bone morphology
  • abnormal line of Schwalbe morphology
  • abnormal maxillary zygomatic process morphology
  • abnormal meninges morphology
  • abnormal mesonephros morphology
  • abnormal metacarpal bone morphology
  • abnormal metanephros morphology
  • abnormal metatarsal bone morphology
  • abnormal nasal capsule morphology
  • abnormal nasolacrimal duct morphology
  • abnormal neocortex morphology
  • abnormal nervous system development
  • abnormal neurocranium morphology
  • abnormal neuron differentiation
  • abnormal neuron proliferation
  • abnormal notochord morphology
  • abnormal occipital bone morphology
  • abnormal ovarian bursa morphology
  • abnormal ovarian cortex morphology
  • abnormal ovarian follicle morphology
  • abnormal ovarian medulla morphology
  • abnormal ovary morphology
  • abnormal oviduct morphology
  • abnormal patella morphology
  • abnormal phalanx morphology
  • abnormal pharyngeal arch artery morphology
  • abnormal pituitary diverticulum morphology
  • abnormal pituitary gland development
  • abnormal placement of pupils
  • abnormal primordial germ cell migration
  • abnormal pulmonary valve cusp morphology
  • abnormal pulmonary valve morphology
  • abnormal radial glial cell morphology
  • abnormal renal/urinary system morphology
  • abnormal reproductive system morphology
  • abnormal rib development
  • abnormal rib morphology
  • abnormal right renal artery morphology
  • abnormal roof plate morphology
  • abnormal scapula morphology
  • abnormal semilunar valve morphology
  • abnormal skeleton development
  • abnormal skeleton morphology
  • abnormal sphenoid bone morphology
  • abnormal spinal cord morphology
  • abnormal sternebra morphology
  • abnormal sternocostal joint morphology
  • abnormal sternum morphology
  • abnormal sternum ossification
  • abnormal stratification in cerebral cortex
  • abnormal striatum morphology
  • abnormal tarsal bone morphology
  • abnormal testis tunica albuginea morphology
  • abnormal third ventricle morphology
  • abnormal thyroid cartilage morphology
  • abnormal tibia morphology
  • abnormal trabecular meshwork morphology
  • abnormal tracheal cartilage morphology
  • abnormal trigeminal ganglion morphology
  • abnormal triquetrum morphology
  • abnormal ureter development
  • abnormal urogenital fold morphology
  • abnormal vertebrae development
  • abnormal vertebral arch morphology
  • abnormal vertebral transverse process morphology
  • abnormal vibrissa number
  • abnormal xiphoid process morphology
  • absent Schlemm's canal
  • absent corpus callosum
  • absent epiglottis
  • absent eye anterior chamber
  • absent frontal bone
  • absent intraorbital lacrimal gland
  • absent neurocranium
  • absent sesamoid bone of gastrocnemius
  • absent sternum
  • absent sternum body
  • anterior iris synechia
  • aortic arch coarctation
  • bifid ureter
  • blind ureter
  • cataract
  • ciliary body hypoplasia
  • corneal vascularization
  • decreased fetal size
  • decreased oocyte number
  • delayed bone ossification
  • delayed endochondral bone ossification
  • dilated lateral ventricles
  • disorganized testis cords
  • duplex kidney
  • ectopic neuron
  • ectopic ovary
  • ectopic testis
  • ectopic ureter
  • ectopic ureteric bud
  • enlarged kidney
  • enlarged maxillary zygomatic process
  • eyelids open at birth
  • failure of endochondral bone ossification
  • failure of intramembranous bone ossification
  • failure of sternum ossification
  • fused carpal bones
  • fused tarsal bones
  • hydrocephaly
  • hydronephrosis
  • hydrops fetalis
  • hydroureter
  • hypoplastic trabecular meshwork
  • impaired ovarian folliculogenesis
  • increased cornea thickness
  • increased corneal epithelium thickness
  • increased width of hypertrophic chondrocyte zone
  • interrupted aortic arch
  • intracranial hemorrhage
  • iris hypoplasia
  • iris stroma hypoplasia
  • irregularly shaped pupil
  • microphthalmia
  • mydriasis
  • neonatal lethality complete penetrance
  • no abnormal phenotype detected
  • non-obstructive hydrocephaly
  • oocyte degeneration
  • ovary cysts
  • ovary hemorrhage
  • patent ductus arteriosus
  • polyovular ovarian follicle
  • radial glial endfoot detachment
  • respiratory failure
  • short basicranium
  • short humerus
  • short limbs
  • short mandible
  • short oviduct
  • short radius
  • short snout
  • short ulna
  • small Meckel's cartilage
  • small basisphenoid bone
  • small gonad
  • small lens
  • small ovary
  • small testis
  • small vertebral body
  • thick aortic valve cusps
  • thick pulmonary valve cusps
  • thin ribs
  • ventricular septal defect
role in cell
  • expression in
  • proliferation
  • differentiation
  • binding in
  • transactivation in
  • growth
  • downregulation in
  • migration
  • activation in
  • upregulation in

Subcellular Expression

Locations within the cell where the protein is known or predicted to be active, providing insight into its function and cellular context.
  • Nucleus
  • heterochromatin
  • cytosol
  • nucleoplasm
  • chromatin

Gene Ontology Annotations

Describes the biological processes, cellular components, and molecular functions associated with the mouse Foxc1 gene, providing context for its role in the cell.

Biological Process

Functions and activities the gene product is involved in
  • negative regulation of angiogenesis
  • ventricular cardiac muscle tissue morphogenesis
  • positive regulation of DNA binding
  • in utero embryonic development
  • lacrimal gland development
  • positive regulation of transcription, DNA-dependent
  • kidney development
  • lymph vessel development
  • positive regulation of keratinocyte differentiation
  • neural crest cell development
  • cerebellum development
  • mesenchymal cell development
  • artery morphogenesis
  • negative regulation of mitotic cell cycle
  • regulation of organ growth
  • germ cell migration
  • cardiac muscle cell proliferation
  • glomerular epithelium development
  • vascular endothelial growth factor receptor signaling pathway
  • Notch signaling pathway
  • somitogenesis
  • positive regulation of gene expression
  • cellular response to epidermal growth factor stimulus
  • endochondral ossification
  • cell proliferation
  • anatomical structure morphogenesis
  • odontogenesis of dentin-containing tooth
  • apoptotic process involved in outflow tract morphogenesis
  • positive regulation of transcription from RNA polymerase II promoter
  • positive regulation of epithelial to mesenchymal transition
  • negative regulation of transcription from RNA polymerase II promoter
  • heart development
  • paraxial mesoderm formation
  • angiogenesis
  • camera-type eye development
  • cell migration
  • glycosaminoglycan metabolic process
  • vascular endothelial growth factor signaling pathway
  • regulation of transcription, DNA-dependent
  • embryonic heart tube development
  • regulation of transcription from RNA polymerase II promoter
  • ovarian follicle development
  • eye development
  • blood vessel remodeling
  • ureteric bud development
  • chemokine-mediated signaling pathway
  • cell differentiation
  • collagen fibril organization

Cellular Component

Where in the cell the gene product is active
  • nucleus
  • heterochromatin
  • cytosol
  • chromatin
  • nucleoplasm

Molecular Function

What the gene product does at the molecular level
  • DNA binding
  • sequence-specific DNA binding transcription factor activity
  • protein binding
  • RNA polymerase II core promoter proximal region sequence-specific DNA binding
  • RNA polymerase II regulatory region sequence-specific DNA binding
  • DNA binding, bending
  • transcription regulatory region sequence-specific DNA binding
  • RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription
  • sequence-specific DNA binding
  • sequence-specific DNA binding RNA polymerase II transcription factor activity

Gene-Specific Assays for Results You Can Trust

Streamline your workflow with assays designed for this gene. Our targeted dPCR and qPCR assays help you generate meaningful data – efficiently and accurately.