Shh (sonic hedgehog) - Rat Genome Database

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Gene: Shh (sonic hedgehog) Mus musculus
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Symbol: Shh
Name: sonic hedgehog
RGD ID: 736830
MGI Page MGI
Description: Enables several functions, including cholesterol-protein transferase activity; laminin-1 binding activity; and patched binding activity. Involved in several processes, including hemopoiesis; positive regulation of T cell activation; and regulation of smooth muscle cell differentiation. Acts upstream of or within several processes, including nervous system development; respiratory system development; and tube morphogenesis. Located in several cellular components, including cell surface; extracellular space; and membrane raft. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; respiratory system; and sensory organ. Used to study brachydactyly type A1; holoprosencephaly 3; and nevoid basal cell carcinoma syndrome. Human ortholog(s) of this gene implicated in several diseases, including Hirschsprung's disease; holoprosencephaly (multiple); hypoplastic or aplastic tibia with polydactyly; middle cerebral artery infarction; and polydactyly. Orthologous to human SHH (sonic hedgehog signaling molecule).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 9530036O11Rik; Dsh; hemimelic extra toes; HHG-1; Hhg1; Hx; Hxl3; M100081; shh unprocessed N-terminal signaling and C-terminal autoprocessing domains; ShhNC; short digits; sonic hedgehog protein
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39528,661,838 - 28,672,099 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl528,661,813 - 28,672,254 (-)EnsemblGRCm39 Ensembl
GRCm38528,456,840 - 28,467,101 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl528,456,815 - 28,467,256 (-)EnsemblGRCm38mm10GRCm38
MGSCv37528,783,380 - 28,793,641 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36528,787,627 - 28,797,875 (-)NCBIMGSCv36mm8
Celera525,997,895 - 26,008,156 (-)NCBICelera
Cytogenetic Map5B1NCBI
cM Map514.39NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acrocallosal syndrome  (ISO)
Anorectal Malformations  (ISO)
atrioventricular septal defect  (IMP)
autism spectrum disorder  (ISO)
autistic disorder  (ISO)
basal cell carcinoma  (ISO)
biliary atresia  (ISO)
brachydactyly type A1  (IEP)
chronic kidney disease  (IEP,ISO)
cleft palate  (IGI)
colorectal cancer  (ISO)
Congenital Limb Deformities  (IMP)
demyelinating disease  (IEP)
esophageal atresia/tracheoesophageal fistula  (ISO)
Experimental Arthritis  (ISO)
Experimental Autoimmune Encephalomyelitis  (IEP,ISO)
Eye Abnormalities  (ISO)
Facial Dysmorphism with Multiple Malformations  (ISO)
Failure to Thrive  (ISO)
Fluoride Poisoning  (ISO)
focal segmental glomerulosclerosis  (ISO)
gastrointestinal stromal tumor  (ISO)
genetic disease  (ISO)
hepatocellular carcinoma  (ISO)
Hirschsprung's disease  (ISO)
holoprosencephaly  (IEP,ISO)
holoprosencephaly 3  (IAGP,ISO)
Hyperoxic Lung Injury  (ISO)
hypoplastic or aplastic tibia with polydactyly  (ISO)
hypothyroidism  (ISO)
IgA glomerulonephritis  (ISO)
Isolated Microphthalmia with Coloboma 5  (ISO)
Kidney Reperfusion Injury  (IEP)
membranous glomerulonephritis  (ISO)
microphthalmia  (ISO)
middle cerebral artery infarction  (ISO)
multiple sclerosis  (ISO)
myocardial infarction  (ISO)
Myocardial Reperfusion Injury  (ISO)
neurodevelopmental disorder with dysmorphic facies and distal limb anomalies  (ISO)
nevoid basal cell carcinoma syndrome  (IAGP,IMP)
ocular hypertension  (ISO)
pancreatic cancer  (ISO)
Parkinsonism  (ISO)
Partial Agenesis of Corpus Callosum  (ISO)
Patterson Stevenson Syndrome  (ISO)
Peripheral Nerve Injuries  (ISO)
Persistent Cloaca  (IMP,ISO)
polydactyly  (IEP,ISO)
pre-malignant neoplasm  (ISO)
Preaxial Polydactyly II  (ISO)
primary progressive multiple sclerosis  (ISO)
Schizencephaly  (ISO)
secondary Parkinson disease  (ISO)
septooptic dysplasia  (ISO)
solitary median maxillary central incisor  (ISO)
Spinal Cord Injuries  (ISO)
stomach cancer  (ISO)
Subarachnoid Hemorrhage  (ISO)
syndactyly type 4  (ISO)
temporal lobe epilepsy  (ISO)
ureteral obstruction  (IEP)
VACTERL association  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-amphetamine  (ISO)
1,1-dichloroethene  (EXP)
1-[(4-chlorophenyl)-phenylmethyl]-4-methylpiperazine  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-5alpha-androstan-3-one  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,3',5,5'-tetrabromobisphenol A  (EXP)
4,4'-sulfonyldiphenol  (EXP)
4-hydroxyphenyl retinamide  (EXP)
5-fluorouracil  (EXP,ISO)
6-propyl-2-thiouracil  (ISO)
Ac-Ser-Asp-Lys-Pro-OH  (ISO)
actinomycin D  (ISO)
aldehydo-D-glucose  (EXP,ISO)
all-trans-retinoic acid  (EXP,ISO)
all-trans-retinol  (EXP)
alpha-Zearalanol  (ISO)
ammonium chloride  (ISO)
apomorphine  (ISO)
Aroclor 1254  (EXP)
arsenous acid  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzylpenicillin  (EXP)
bexarotene  (ISO)
bis(2-chloroethyl) sulfide  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
captopril  (ISO)
carbon nanotube  (EXP)
chloroprene  (EXP)
chromium(6+)  (EXP,ISO)
cisplatin  (ISO)
curcumin  (ISO)
Cyclopamine  (EXP,ISO)
D-glucose  (EXP,ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
dioxygen  (EXP,ISO)
ethanol  (EXP)
Ethylenethiourea  (ISO)
flavonoids  (ISO)
folic acid  (EXP,ISO)
gemcitabine  (ISO)
genistein  (EXP)
glucose  (EXP,ISO)
glyphosate  (ISO)
goralatide  (ISO)
hydrogen peroxide  (ISO)
ipriflavone  (EXP,ISO)
isotretinoin  (ISO)
lansoprazole  (EXP)
leflunomide  (EXP)
lipopolysaccharide  (EXP,ISO)
lithium chloride  (EXP)
melittin  (ISO)
methimazole  (ISO)
methylmercury chloride  (EXP)
mono(2-ethylhexyl) phthalate  (EXP)
N-ethyl-N-nitrosourea  (EXP)
nitrofen  (ISO)
Nor-9-carboxy-delta9-THC  (ISO)
ochratoxin A  (ISO)
oxidopamine  (ISO)
ozone  (EXP)
paracetamol  (EXP,ISO)
paraquat  (EXP,ISO)
perfluorooctanoic acid  (ISO)
phenytoin  (EXP)
piperonyl butoxide  (ISO)
pirinixic acid  (ISO)
potassium dichromate  (EXP)
progesterone  (ISO)
quercetin  (ISO)
quercetin 3-O-beta-D-galactopyranoside  (ISO)
resveratrol  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
saccharin  (EXP)
silicon dioxide  (ISO)
silver atom  (EXP)
silver(0)  (EXP)
sodium arsenite  (EXP,ISO)
sodium fluoride  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP)
tetramethylpyrazine  (EXP)
thyroxine  (ISO)
titanium dioxide  (EXP)
tofacitinib  (ISO)
tolnaftate  (EXP,ISO)
trans-piceid  (EXP)
triadimefon  (ISO)
triptonide  (ISO)
udenafil  (ISO)
urethane  (ISO)
valproic acid  (EXP,ISO)
vancomycin  (EXP)
vismodegib  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
alpha-beta T cell differentiation  (IMP)
alpha-tubulin acetylation  (IDA)
anatomical structure formation involved in morphogenesis  (IMP)
androgen metabolic process  (IMP)
angiogenesis  (IDA,IGI,IMP)
animal organ formation  (IMP)
anterior/posterior pattern specification  (IMP)
apoptotic signaling pathway  (IDA)
artery development  (IGI,IMP)
astrocyte differentiation  (IMP)
axon guidance  (IDA,IMP)
Bergmann glial cell differentiation  (IDA)
blood coagulation  (IMP)
branching involved in blood vessel morphogenesis  (IMP)
branching involved in prostate gland morphogenesis  (IDA)
branching involved in salivary gland morphogenesis  (IGI,IMP)
branching involved in ureteric bud morphogenesis  (IMP)
branching morphogenesis of an epithelial tube  (IMP)
bud outgrowth involved in lung branching  (IMP)
camera-type eye development  (IDA,IGI,IMP)
canonical Wnt signaling pathway  (IMP)
CD4-positive or CD8-positive, alpha-beta T cell lineage commitment  (IMP,ISO)
cell development  (IMP)
cell fate commitment  (IGI)
cell fate specification  (IBA,IDA,IGI,IMP)
cell migration  (IDA)
cell population proliferation  (IGI,IMP)
cell proliferation in external granule layer  (IDA)
cell-cell signaling  (IMP)
cellular response to lithium ion  (IDA)
central nervous system development  (IMP)
cerebellar granule cell precursor proliferation  (IDA,IGI)
commissural neuron axon guidance  (ISO)
determination of left/right asymmetry in lateral mesoderm  (IMP)
determination of left/right symmetry  (IMP)
developmental growth  (IMP)
digestive tract mesoderm development  (ISO)
digestive tract morphogenesis  (IMP)
dopaminergic neuron differentiation  (TAS)
dorsal/ventral neural tube patterning  (IDA,IGI,IMP)
dorsal/ventral pattern formation  (IGI)
ectoderm development  (IMP)
embryonic digestive tract morphogenesis  (IMP,TAS)
embryonic digit morphogenesis  (IGI,IMP)
embryonic foregut morphogenesis  (IMP)
embryonic forelimb morphogenesis  (IMP)
embryonic hindlimb morphogenesis  (IMP)
embryonic limb morphogenesis  (IGI,IMP)
embryonic morphogenesis  (IMP)
embryonic organ development  (IMP)
embryonic skeletal system development  (IGI)
endocytosis  (IDA)
epithelial cell proliferation  (IGI,IMP)
epithelial cell proliferation involved in prostate gland development  (IMP)
epithelial cell proliferation involved in salivary gland morphogenesis  (IMP)
epithelial tube branching involved in lung morphogenesis  (IMP,ISO)
epithelial-mesenchymal cell signaling  (IMP)
epithelial-mesenchymal signaling involved in prostate gland development  (IGI)
establishment of epithelial cell polarity  (IDA)
forebrain development  (IGI)
forebrain regionalization  (IMP)
formation of anatomical boundary  (IMP)
fungiform papilla development  (ISO)
fungiform papilla formation  (ISO)
fungiform papilla morphogenesis  (ISO)
gene expression  (IDA,IMP)
hair follicle development  (IMP)
hair follicle morphogenesis  (IMP)
heart development  (IMP)
heart looping  (IMP)
hindbrain development  (IGI,IMP)
hindgut morphogenesis  (IMP)
inner ear development  (IGI,IMP)
intein-mediated protein splicing  (IEA)
intermediate filament organization  (IMP)
kidney development  (IMP)
left lung development  (IMP)
limb bud formation  (IMP)
limb development  (IGI,IMP)
liver regeneration  (ISO)
lung development  (IGI,IMP)
lung epithelium development  (IMP)
lung lobe morphogenesis  (IMP)
lung morphogenesis  (IMP)
lung-associated mesenchyme development  (IMP)
lymphoid progenitor cell differentiation  (IMP,ISO)
male genitalia development  (IMP)
male genitalia morphogenesis  (ISO)
mesenchymal cell apoptotic process  (IMP)
mesenchymal cell proliferation  (IMP)
mesenchymal cell proliferation involved in lung development  (IDA)
mesenchymal smoothened signaling pathway involved in prostate gland development  (IMP)
mesenchymal-epithelial cell signaling involved in prostate gland development  (ISO)
metanephric collecting duct development  (ISO)
metanephric mesenchymal cell proliferation involved in metanephros development  (IMP)
metanephros development  (IMP)
midbrain development  (IGI)
myoblast differentiation  (IDA)
myotube differentiation  (IMP)
negative regulation of alpha-beta T cell differentiation  (IMP)
negative regulation of apoptotic process  (IDA,IGI,IMP,ISO)
negative regulation of canonical Wnt signaling pathway  (IMP)
negative regulation of cell migration  (IDA)
negative regulation of cellular process  (ISO)
negative regulation of cholesterol efflux  (IMP)
negative regulation of dopaminergic neuron differentiation  (IMP)
negative regulation of gene expression  (IMP)
negative regulation of kidney smooth muscle cell differentiation  (IDA)
negative regulation of mesenchymal cell apoptotic process  (IMP)
negative regulation of neuron differentiation  (IDA,IMP)
negative regulation of proteasomal ubiquitin-dependent protein catabolic process  (IMP)
negative regulation of protein catabolic process  (IMP)
negative regulation of T cell differentiation in thymus  (IMP)
negative regulation of T cell proliferation  (IMP)
negative regulation of transcription by RNA polymerase II  (IDA,IMP)
negative regulation of transcription elongation by RNA polymerase II  (IDA)
negative regulation of ureter smooth muscle cell differentiation  (IDA)
negative regulation of Wnt signaling pathway  (IDA)
negative thymic T cell selection  (IMP)
neural crest cell migration  (IMP)
neural tube formation  (ISO)
neuroblast proliferation  (IDA,IMP)
neuron differentiation  (IDA,IMP)
neuron fate commitment  (IMP)
obsolete response to organonitrogen compound  (ISO)
odontogenesis  (IDA)
odontogenesis of dentin-containing tooth  (IMP)
oligodendrocyte development  (IDA)
oligodendrocyte differentiation  (IBA,IGI)
osteoblast development  (IDA)
pancreas development  (IGI,IMP)
pattern specification process  (IGI,IMP)
polarity specification of anterior/posterior axis  (IMP)
positive regulation of alpha-beta T cell differentiation  (IMP)
positive regulation of astrocyte differentiation  (IMP)
positive regulation of cell division  (ISO)
positive regulation of cell population proliferation  (IDA,IGI,IMP,ISO)
positive regulation of cerebellar granule cell precursor proliferation  (IDA)
positive regulation of DNA-templated transcription  (IDA,ISO)
positive regulation of endothelial cell chemotaxis  (ISO)
positive regulation of epithelial cell proliferation  (IGI,IMP)
positive regulation of epithelial cell proliferation involved in prostate gland development  (IMP)
positive regulation of gene expression  (IMP)
positive regulation of immature T cell proliferation in thymus  (IMP)
positive regulation of kidney smooth muscle cell differentiation  (IDA)
positive regulation of mesenchymal cell proliferation  (IMP)
positive regulation of mesenchymal cell proliferation involved in ureter development  (IMP)
positive regulation of neuroblast proliferation  (IDA,IMP,ISO)
positive regulation of neuron differentiation  (ISO)
positive regulation of neurotrophin production  (ISO)
positive regulation of oligodendrocyte differentiation  (IDA)
positive regulation of oligodendrocyte progenitor proliferation  (ISO)
positive regulation of penile erection  (ISO)
positive regulation of photoreceptor cell differentiation  (ISO)
positive regulation of protein import into nucleus  (IGI)
positive regulation of sclerotome development  (ISO)
positive regulation of skeletal muscle cell proliferation  (IMP)
positive regulation of skeletal muscle tissue development  (IMP)
positive regulation of smoothened signaling pathway  (ISO)
positive regulation of sprouting angiogenesis  (ISO)
positive regulation of striated muscle cell differentiation  (IMP)
positive regulation of T cell differentiation in thymus  (IMP)
positive regulation of transcription by RNA polymerase II  (IDA,IGI,IMP)
positive regulation of ureter smooth muscle cell differentiation  (IMP)
positive regulation of Wnt signaling pathway  (IMP)
positive thymic T cell selection  (IMP)
primary prostatic bud elongation  (IDA)
prostate epithelial cord elongation  (IDA)
prostate gland development  (IMP,ISO)
prostatic bud formation  (IGI)
protein autoprocessing  (IEA)
protein import into nucleus  (IGI)
protein localization to nucleus  (IDA)
proteolysis  (IEA)
regulation of cell population proliferation  (ISO)
regulation of DNA-templated transcription  (IMP)
regulation of epithelial cell differentiation  (ISO)
regulation of epithelial cell proliferation involved in prostate gland development  (IMP)
regulation of gene expression  (IBA,IDA,IGI,IMP,ISO)
regulation of glial cell proliferation  (IDA)
regulation of mesenchymal cell proliferation involved in prostate gland development  (IMP)
regulation of odontogenesis  (IMP)
regulation of prostatic bud formation  (IDA,IMP)
regulation of protein localization to nucleus  (ISO)
regulation of proteolysis  (IDA)
regulation of stem cell proliferation  (IMP)
respiratory tube development  (IMP)
response to axon injury  (ISO)
response to estradiol  (ISO)
response to ethanol  (ISO)
response to hypoxia  (ISO)
response to retinoic acid  (ISO)
right lung development  (IMP)
roof of mouth development  (IMP)
salivary gland cavitation  (IDA)
self proteolysis  (IDA)
signal transduction  (TAS)
skeletal muscle cell proliferation  (IMP)
skeletal muscle fiber differentiation  (IMP)
skeletal muscle tissue development  (IMP)
skin development  (IMP)
smooth muscle tissue development  (ISO)
smoothened signaling pathway  (IBA,IDA,IGI,IMP,ISO)
somite development  (IMP)
spinal cord dorsal/ventral patterning  (IMP,ISO)
spinal cord motor neuron differentiation  (IGI)
stem cell development  (IMP)
stem cell proliferation  (IDA)
striated muscle cell differentiation  (IDA)
striated muscle tissue development  (IMP)
T cell differentiation in thymus  (IMP)
T cell proliferation  (IMP)
telencephalon regionalization  (IMP,ISO)
thalamus development  (IGI,IMP)
thymus development  (IMP)
thyroid gland development  (IMP)
tongue development  (ISO)
tongue morphogenesis  (ISO)
trachea development  (IMP)
trachea morphogenesis  (IMP)
tracheoesophageal septum formation  (IMP)
trunk neural crest cell migration  (IDA)
vasculature development  (IMP)
vasculogenesis  (IDA)
vasculogenesis involved in coronary vascular morphogenesis  (TAS)
ventral spinal cord interneuron specification  (ISO)
zona limitans intrathalamica formation  (ISO)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal adenohypophysis development  (IAGP)
abnormal adrenal gland morphology  (IAGP)
abnormal adrenal gland physiology  (IAGP)
abnormal adrenocortical cell morphology  (IAGP)
abnormal airway basal cell morphology  (IAGP)
abnormal aldosterone level  (IAGP)
abnormal ameloblast morphology  (IAGP)
abnormal artery morphology  (IAGP)
abnormal arytenoid cartilage morphology  (IAGP)
abnormal astrocyte morphology  (IAGP)
abnormal atrium myocardium morphology  (IAGP)
abnormal autopod morphology  (IAGP)
abnormal axial skeleton morphology  (IAGP)
abnormal basisphenoid bone morphology  (IAGP)
abnormal brain interneuron morphology  (IAGP)
abnormal branching involved in lung morphogenesis  (IAGP)
abnormal bronchiole epithelium morphology  (IAGP)
abnormal bronchus morphology  (IAGP)
abnormal cardiac outflow tract development  (IAGP)
abnormal cardiovascular system morphology  (IAGP)
abnormal carpal bone morphology  (IAGP)
abnormal cartilage development  (IAGP)
abnormal cartilage morphology  (IAGP)
abnormal cell differentiation  (IAGP)
abnormal cell physiology  (IAGP)
abnormal cerebellar granule cell morphology  (IAGP)
abnormal cerebellar granule layer morphology  (IAGP)
abnormal cerebellar lobule formation  (IAGP)
abnormal cerebellar molecular layer  (IAGP)
abnormal cerebellar Purkinje cell layer  (IAGP)
abnormal cerebellum development  (IAGP)
abnormal cerebellum external granule cell layer morphology  (IAGP)
abnormal cerebellum morphology  (IAGP)
abnormal cerebral hemisphere morphology  (IAGP)
abnormal chondrocyte differentiation  (IAGP)
abnormal choroid plexus morphology  (IAGP)
abnormal clavicle morphology  (IAGP)
abnormal colon morphology  (IAGP)
abnormal corpus callosum morphology  (IAGP)
abnormal craniofacial bone morphology  (IAGP)
abnormal craniofacial development  (IAGP)
abnormal craniofacial morphology  (IAGP)
abnormal cranium morphology  (IAGP)
abnormal cystic duct morphology  (IAGP)
abnormal dentin morphology  (IAGP)
abnormal dermal layer morphology  (IAGP)
abnormal dermis papillary layer morphology  (IAGP)
abnormal diencephalon morphology  (IAGP)
abnormal digestive organ placement  (IAGP)
abnormal digestive system morphology  (IAGP)
abnormal digit morphology  (IAGP)
abnormal dorsal-ventral axis patterning  (IAGP)
abnormal duodenum morphology  (IAGP)
abnormal ear morphology  (IAGP)
abnormal embryo development  (IAGP)
abnormal embryo size  (IAGP)
abnormal embryo turning  (IAGP)
abnormal embryonic autopod plate morphology  (IAGP)
abnormal embryonic/fetal subventricular zone morphology  (IAGP)
abnormal enamel morphology  (IAGP)
abnormal enteric neuron morphology  (IAGP)
abnormal esophageal epithelium morphology  (IAGP)
abnormal esophagus morphology  (IAGP)
abnormal eye development  (IAGP)
abnormal eye morphology  (IAGP)
abnormal eyelid morphology  (IAGP)
abnormal facial morphology  (IAGP)
abnormal floor plate morphology  (IAGP)
abnormal forebrain morphology