SHH (sonic hedgehog signaling molecule) - Rat Genome Database

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Gene: SHH (sonic hedgehog signaling molecule) Sus scrofa
Analyze
Symbol: SHH
Name: sonic hedgehog signaling molecule
RGD ID: 13868636
Description: ENCODES a protein that exhibits hydrolase activity (ortholog); INVOLVED IN anatomical structure development (ortholog); anatomical structure formation involved in morphogenesis (ortholog); androgen metabolic process (ortholog); PARTICIPATES IN altered Hedgehog signaling pathway; forkhead class A signaling pathway; glypican signaling pathway; ASSOCIATED WITH acrocallosal syndrome (ortholog); Anorectal Malformations (ortholog); atrioventricular septal defect (ortholog); FOUND IN axon (ortholog); dendrite (ortholog); endoplasmic reticulum (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: sonic hedgehog protein
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl182,545,718 - 2,555,484 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1182,546,202 - 2,555,484 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2182,664,794 - 2,673,805 (+)NCBISscrofa10.2Sscrofa10.2susScr3
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  (ISO)
autism spectrum disorder  (ISO)
autistic disorder  (ISO)
basal cell carcinoma  (ISO)
biliary atresia  (ISO)
brachydactyly type A1  (ISO)
chronic kidney disease  (ISO)
cleft palate  (ISO)
Congenital Limb Deformities  (ISO)
demyelinating disease  (ISO)
esophageal atresia/tracheoesophageal fistula  (ISO)
Experimental Arthritis  (ISO)
Experimental Autoimmune Encephalomyelitis  (ISO)
Eye Abnormalities  (ISO)
Facial Dysmorphism with Multiple Malformations  (ISO)
Fluoride Poisoning  (ISO)
focal segmental glomerulosclerosis  (ISO)
genetic disease  (ISO)
hepatocellular carcinoma  (ISO)
Hirschsprung's disease  (ISO)
holoprosencephaly  (ISO)
holoprosencephaly 3  (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  (ISO)
membranous glomerulonephritis  (ISO)
microphthalmia  (ISO)
middle cerebral artery infarction  (ISO)
multiple sclerosis  (ISO)
myocardial infarction  (ISO)
Myocardial Reperfusion Injury  (ISO)
nevoid basal cell carcinoma syndrome  (ISO)
ocular hypertension  (ISO)
Parkinsonism  (ISO)
Patterson Stevenson Syndrome  (ISO)
Peripheral Nerve Injuries  (ISO)
Persistent Cloaca  (ISO)
polydactyly  (ISO)
Preaxial Polydactyly II  (ISO)
primary progressive multiple sclerosis  (ISO)
Schizencephaly  (ISO)
secondary Parkinson disease  (ISO)
solitary median maxillary central incisor  (ISO)
Spinal Cord Injuries  (ISO)
Subarachnoid Hemorrhage  (ISO)
syndactyly type 4  (ISO)
temporal lobe epilepsy  (ISO)
ureteral obstruction  (ISO)
VACTERL association  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

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

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:19567223  


Genomics

Comparative Map Data
SHH
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl182,545,718 - 2,555,484 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1182,546,202 - 2,555,484 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2182,664,794 - 2,673,805 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SHH
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl7155,799,980 - 155,812,463 (-)EnsemblGRCh38hg38GRCh38
GRCh387155,799,980 - 155,812,463 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh377155,592,674 - 155,605,157 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367155,288,319 - 155,297,728 (-)NCBINCBI36hg18NCBI36
Build 347155,095,033 - 155,104,443NCBI
Celera7150,021,217 - 150,030,626 (-)NCBI
Cytogenetic Map7q36.3NCBI
HuRef7149,327,101 - 149,336,513 (-)NCBIHuRef
CHM1_17155,604,000 - 155,613,409 (-)NCBICHM1_1
CRA_TCAGchr7v27154,827,119 - 154,836,528 (-)NCBI
Shh
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39528,661,838 - 28,672,099 (-)NCBIGRCm39mm39
GRCm39 Ensembl528,661,813 - 28,672,254 (-)Ensembl
GRCm38528,456,840 - 28,467,101 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl528,456,815 - 28,467,256 (-)EnsemblGRCm38mm10GRCm38
MGSCv37528,783,380 - 28,793,641 (-)NCBIGRCm37mm9NCBIm37
MGSCv36528,787,627 - 28,797,875 (-)NCBImm8
Celera525,997,895 - 26,008,156 (-)NCBICelera
Cytogenetic Map5B1NCBI
cM Map514.39NCBI
Shh
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.246,954,017 - 6,963,170 (+)NCBI
Rnor_6.0 Ensembl4718,538 - 727,691 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04718,538 - 727,691 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04711,420 - 720,573 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.442,200,504 - 2,209,657 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.142,200,503 - 2,209,657 (+)NCBI
Celera43,316,537 - 3,325,690 (-)NCBICelera
Cytogenetic Map4q11NCBI
Shh
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554918,647,133 - 8,657,381 (-)NCBIChiLan1.0ChiLan1.0
SHH
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17159,116,966 - 159,126,660 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7159,114,666 - 159,126,651 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v07147,400,112 - 147,414,036 (-)NCBIMhudiblu_PPA_v0panPan3
SHH
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11618,650,553 - 18,663,571 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1618,484,809 - 18,662,903 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1619,286,449 - 19,295,913 (-)NCBI
ROS_Cfam_1.01620,382,879 - 20,392,367 (-)NCBI
UMICH_Zoey_3.11618,753,210 - 18,762,671 (-)NCBI
UNSW_CanFamBas_1.01619,333,131 - 19,342,583 (-)NCBI
UU_Cfam_GSD_1.01619,386,812 - 19,396,258 (-)NCBI
Shh
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244051182,860,455 - 2,871,247 (+)NCBI
SpeTri2.0NW_00493652710,033,095 - 10,042,713 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SHH
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121123,929,937 - 123,942,451 (-)NCBI
ChlSab1.1 Ensembl21123,932,900 - 123,942,395 (-)Ensembl
Vero_WHO_p1.0NW_02366607220,134,625 - 20,147,164 (-)NCBI
Shh
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248002,202,986 - 2,215,309 (+)NCBI


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system hemolymphoid system nervous system renal system reproductive system respiratory system
High
Medium
Low 3 13 2 2
Below cutoff 5 1 7 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000017875   ⟹   ENSSSCP00000017394
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl182,545,718 - 2,555,484 (+)Ensembl
RefSeq Acc Id: NM_001244513   ⟹   NP_001231442
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1182,546,202 - 2,555,484 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001231442 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ADN64834 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001231442   ⟸   NM_001244513
- Peptide Label: preproprotein
- UniProtKB: E2J596 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000017394   ⟸   ENSSSCT00000017875
Protein Domains
HintC   HintN


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000016416 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000017394 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000017875 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.30.1380.10 UniProtKB/TrEMBL
InterPro Hedgehog UniProtKB/TrEMBL
  Hedgehog_Hint UniProtKB/TrEMBL
  Hedgehog_sig/DD-Pept_Zn-bd_sf UniProtKB/TrEMBL
  Hedgehog_signalling_dom UniProtKB/TrEMBL
  Hint_dom_C UniProtKB/TrEMBL
  Hint_dom_N UniProtKB/TrEMBL
  Hint_dom_sf UniProtKB/TrEMBL
  Intein_N UniProtKB/TrEMBL
KEGG Report ssc:100512749 UniProtKB/TrEMBL
NCBI Gene SHH ENTREZGENE
Pfam HH_signal UniProtKB/TrEMBL
  Hint UniProtKB/TrEMBL
PIRSF Peptidase_C46 UniProtKB/TrEMBL
PRINTS SONICHHOG UniProtKB/TrEMBL
PROSITE INTEIN_N_TER UniProtKB/TrEMBL
SMART HintC UniProtKB/TrEMBL
  HintN UniProtKB/TrEMBL
Superfamily-SCOP SSF51294 UniProtKB/TrEMBL
  SSF55166 UniProtKB/TrEMBL
UniProt E2J596 ENTREZGENE, UniProtKB/TrEMBL
  F1SHU9_PIG UniProtKB/TrEMBL
VGNC ID VGNC:92844 ENTREZGENE