SHH sonic hedgehog signaling molecule [ Homo sapiens (human) ]

Gene ID: 6469, updated on 11-Jun-2025

Summary

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Official Symbol: SHHprovided by HGNC
Official Full Name: sonic hedgehog signaling moleculeprovided by HGNC
Primary source: HGNC:HGNC:10848
See related: Ensembl:ENSG00000164690 MIM:600725; AllianceGenome:HGNC:10848
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: TPT; HHG1; HLP3; HPE3; SMMCI; ShhNC; TPTPS; MCOPCB5
Summary: This gene encodes a protein that is instrumental in patterning the early embryo. It has been implicated as the key inductive signal in patterning of the ventral neural tube, the anterior-posterior limb axis, and the ventral somites. Of three human proteins showing sequence and functional similarity to the sonic hedgehog protein of Drosophila, this protein is the most similar. The protein is made as a precursor that is autocatalytically cleaved; the N-terminal portion is soluble and contains the signalling activity while the C-terminal portion is involved in precursor processing. More importantly, the C-terminal product covalently attaches a cholesterol moiety to the N-terminal product, restricting the N-terminal product to the cell surface and preventing it from freely diffusing throughout the developing embryo. Defects in this protein or in its signalling pathway are a cause of holoprosencephaly (HPE), a disorder in which the developing forebrain fails to correctly separate into right and left hemispheres. HPE is manifested by facial deformities. It is also thought that mutations in this gene or in its signalling pathway may be responsible for VACTERL syndrome, which is characterized by vertebral defects, anal atresia, tracheoesophageal fistula with esophageal atresia, radial and renal dysplasia, cardiac anomalies, and limb abnormalities. Additionally, mutations in a long range enhancer located approximately 1 megabase upstream of this gene disrupt limb patterning and can result in preaxial polydactyly. [provided by RefSeq, Jul 2008]
Expression: Biased expression in stomach (RPKM 3.1), urinary bladder (RPKM 2.9) and 10 other tissues See more
Orthologs: mouse all
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Genomic context

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See SHH in Genome Data Viewer

Location:: 7q36.3

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	7	NC_000007.14 (155799980..155812463, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	7	NC_060931.1 (156983127..156995607, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	7	NC_000007.13 (155592674..155605157, complement)

Chromosome 7 - NC_000007.14 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Tissue-specific circular RNA induction during human fetal development
Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
BioProject: PRJNA270632
Publication: PMID 26076956
Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Truncating variants of the sterol recognition region of SHH cause hypertelorism phenotype rather than hypotelorism-holoprosencephaly.
Title: Truncating variants of the sterol recognition region of SHH cause hypertelorism phenotype rather than hypotelorism-holoprosencephaly.
Impact of Sonic Hedgehog-dependent sphenoid bone defect on craniofacial growth.
Title: Impact of Sonic Hedgehog-dependent sphenoid bone defect on craniofacial growth.
SALL4 is a CRL3[REN/KCTD11] substrate that drives Sonic Hedgehog-dependent medulloblastoma.
Title: SALL4 is a CRL3(REN/KCTD11) substrate that drives Sonic Hedgehog-dependent medulloblastoma.
Tumor Explants Elucidate a Cascade of Paracrine SHH, WNT, and VEGF Signals Driving Pancreatic Cancer Angiosuppression.
Title: Tumor Explants Elucidate a Cascade of Paracrine SHH, WNT, and VEGF Signals Driving Pancreatic Cancer Angiosuppression.
Phosphorylation of human glioma-associated oncogene 1 on Ser937 regulates Sonic Hedgehog signaling in medulloblastoma.
Title: Phosphorylation of human glioma-associated oncogene 1 on Ser937 regulates Sonic Hedgehog signaling in medulloblastoma.
Serum levels of sonic hedgehog in patients with IgA nephropathy are closely associated with intrarenal arteriolar lesions.
Title: Serum levels of sonic hedgehog in patients with IgA nephropathy are closely associated with intrarenal arteriolar lesions.
Activation of Sonic Hedgehog Signaling Pathway Regulates Human Trabecular Meshwork Cell Function.
Title: Activation of Sonic Hedgehog Signaling Pathway Regulates Human Trabecular Meshwork Cell Function.
Low Expression of the NRP1 Gene Is Associated with Shorter Overall Survival in Patients with Sonic Hedgehog and Group 3 Medulloblastoma.
Title: Low Expression of the NRP1 Gene Is Associated with Shorter Overall Survival in Patients with Sonic Hedgehog and Group 3 Medulloblastoma.
Expression of Shh, Gli1, and Cyr61 in Gastric Cancer Predicts Overall Survival of Patients: A Retrospective Study.
Title: Expression of Shh, Gli1, and Cyr61 in Gastric Cancer Predicts Overall Survival of Patients: A Retrospective Study.
Noncanonical Sonic Hedgehog signaling amplifies platelet reactivity and thrombogenicity.
Title: Noncanonical Sonic Hedgehog signaling amplifies platelet reactivity and thrombogenicity.

Submit: New GeneRIF Correction See all GeneRIFs (542)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Associated conditions

Description	Tests
Holoprosencephaly 3 MedGen: C1840529 OMIM: 142945 GeneReviews: Holoprosencephaly Overview	Compare labs
Microphthalmia, isolated, with coloboma 5 MedGen: C1968843 OMIM: 611638 GeneReviews: Not available	Compare labs
Solitary median maxillary central incisor syndrome MedGen: C1840235 OMIM: 147250 GeneReviews: Not available	Compare labs

Copy number response

Description
Copy number response Triplosensitivity No evidence available (Last evaluated 2020-06-24) ClinGen Genome Curation PagePubMed Haploinsufficency Sufficient evidence for dosage pathogenicity (Last evaluated 2020-06-24) ClinGen Genome Curation PagePubMed

EBI GWAS Catalog

Description
Genome-wide meta-analyses identifies seven loci associated with platelet aggregation in response to agonists. EBI GWAS Catalog EBI GWAS CatalogPubMed
Identification of a candidate gene for astigmatism. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH71367 (e-PCR)
- UniSTS:49423

GDB:456307 (e-PCR)
- UniSTS:157484

D7S550 (e-PCR)
- UniSTS:67923

Shh (e-PCR), detects polymorphism
- UniSTS:465494

Shh (e-PCR), detects polymorphism
- UniSTS:238169

D7S559 (e-PCR), detects polymorphism
- UniSTS:148075

RH69762 (e-PCR)
- UniSTS:9070

NoName (e-PCR)
- UniSTS:481236

Shh (e-PCR), detects polymorphism
- UniSTS:547824

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables calcium ion binding	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion binding	IDA Inferred from Direct Assay more info	PubMed
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables cholesterol-protein transferase activity	IEA Inferred from Electronic Annotation more info
enables cholesterol-protein transferase activity	ISS Inferred from Sequence or Structural Similarity more info
enables endopeptidase activity	TAS Traceable Author Statement more info
enables glycosaminoglycan binding	IEA Inferred from Electronic Annotation more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables laminin-1 binding	IEA Inferred from Electronic Annotation more info
enables laminin-1 binding	ISS Inferred from Sequence or Structural Similarity more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables morphogen activity	NAS Non-traceable Author Statement more info	PubMed
enables morphogen activity	TAS Traceable Author Statement more info	PubMed
enables patched binding	IBA Inferred from Biological aspect of Ancestor more info
enables patched binding	IDA Inferred from Direct Assay more info	PubMed
enables patched binding	IEA Inferred from Electronic Annotation more info
enables peptidase activity	IEA Inferred from Electronic Annotation more info
enables peptidase activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transferase activity	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within Bergmann glial cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in CD4-positive or CD8-positive, alpha-beta T cell lineage commitment	IDA Inferred from Direct Assay more info	PubMed
involved_in CD4-positive or CD8-positive, alpha-beta T cell lineage commitment	IEA Inferred from Electronic Annotation more info
acts_upstream_of T cell differentiation in thymus	IEA Inferred from Electronic Annotation more info
involved_in T cell differentiation in thymus	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of T cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of alpha-beta T cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within anatomical structure formation involved in morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within androgen metabolic process	IEA Inferred from Electronic Annotation more info
involved_in androgen metabolic process	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within angiogenesis	IEA Inferred from Electronic Annotation more info
involved_in animal organ development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within animal organ formation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within anterior/posterior pattern specification	IEA Inferred from Electronic Annotation more info
involved_in apoptotic signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in apoptotic signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within artery development	IEA Inferred from Electronic Annotation more info
acts_upstream_of astrocyte differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within axon guidance	IEA Inferred from Electronic Annotation more info
involved_in axon guidance	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within blood coagulation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within branching involved in blood vessel morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in branching involved in blood vessel morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within branching involved in prostate gland morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within branching involved in salivary gland morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within branching involved in ureteric bud morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in branching involved in ureteric bud morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within branching morphogenesis of an epithelial tube	IEA Inferred from Electronic Annotation more info
involved_in branching morphogenesis of an epithelial tube	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within bud outgrowth involved in lung branching	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within camera-type eye development	IEA Inferred from Electronic Annotation more info
acts_upstream_of canonical Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell development	IEA Inferred from Electronic Annotation more info
involved_in cell development	IEA Inferred from Electronic Annotation more info
involved_in cell development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within cell fate commitment	IEA Inferred from Electronic Annotation more info
involved_in cell fate commitment	IEA Inferred from Electronic Annotation more info
involved_in cell fate specification	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cell fate specification	IEA Inferred from Electronic Annotation more info
involved_in cell fate specification	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of cell migration	IEA Inferred from Electronic Annotation more info
acts_upstream_of cell population proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell proliferation in external granule layer	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell-cell signaling	IEA Inferred from Electronic Annotation more info
involved_in cell-cell signaling	IEA Inferred from Electronic Annotation more info
involved_in cell-cell signaling	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within cellular response to lithium ion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within central nervous system development	IEA Inferred from Electronic Annotation more info
involved_in central nervous system development	IEA Inferred from Electronic Annotation more info
involved_in central nervous system development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of cerebellar granule cell precursor proliferation	IEA Inferred from Electronic Annotation more info
involved_in cerebellar granule cell precursor proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in determination of left/right asymmetry in lateral mesoderm	IEA Inferred from Electronic Annotation more info
involved_in determination of left/right asymmetry in lateral mesoderm	ISS Inferred from Sequence or Structural Similarity more info
involved_in determination of left/right asymmetry in lateral mesoderm	NAS Non-traceable Author Statement more info	PubMed
acts_upstream_of_or_within determination of left/right symmetry	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within developmental growth	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within digestive tract morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in dopaminergic neuron differentiation	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within dorsal/ventral neural tube patterning	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within dorsal/ventral pattern formation	IEA Inferred from Electronic Annotation more info
involved_in dorsal/ventral pattern formation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within ectoderm development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryonic digestive tract morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryonic digit morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in embryonic digit morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within embryonic foregut morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryonic forelimb morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryonic hindlimb morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryonic limb morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in embryonic limb morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within embryonic morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryonic organ development	IEA Inferred from Electronic Annotation more info
involved_in embryonic pattern specification	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within embryonic skeletal system development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within endocytosis	IEA Inferred from Electronic Annotation more info
acts_upstream_of epithelial cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of epithelial cell proliferation involved in prostate gland development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within epithelial cell proliferation involved in salivary gland morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within epithelial tube branching involved in lung morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within epithelial-mesenchymal cell signaling	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within epithelial-mesenchymal cell signaling	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within epithelial-mesenchymal signaling involved in prostate gland development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within establishment of epithelial cell polarity	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within forebrain development	IEA Inferred from Electronic Annotation more info
involved_in forebrain development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within forebrain regionalization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within formation of anatomical boundary	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within gene expression	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within hair follicle development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within hair follicle morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within heart development	IEA Inferred from Electronic Annotation more info
involved_in heart development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within heart looping	IEA Inferred from Electronic Annotation more info
involved_in heart looping	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within hindbrain development	IEA Inferred from Electronic Annotation more info
involved_in hindbrain development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within hindgut morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within inner ear development	IEA Inferred from Electronic Annotation more info
involved_in intein-mediated protein splicing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within intermediate filament organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within kidney development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within left lung development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within limb bud formation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within limb development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within lung development	IEA Inferred from Electronic Annotation more info
involved_in lung development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within lung epithelium development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within lung lobe morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within lung morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within lung-associated mesenchyme development	IEA Inferred from Electronic Annotation more info
involved_in lymphoid progenitor cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in lymphoid progenitor cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within male genitalia development	IEA Inferred from Electronic Annotation more info
involved_in male genitalia development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of mesenchymal cell apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mesenchymal cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mesenchymal cell proliferation involved in lung development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mesenchymal smoothened signaling pathway involved in prostate gland development	IEA Inferred from Electronic Annotation more info
involved_in metanephric collecting duct development	IEP Inferred from Expression Pattern more info	PubMed
involved_in metanephric mesenchymal cell proliferation involved in metanephros development	IEA Inferred from Electronic Annotation more info
involved_in metanephric mesenchymal cell proliferation involved in metanephros development	ISS Inferred from Sequence or Structural Similarity more info
involved_in metanephros development	IEA Inferred from Electronic Annotation more info
involved_in metanephros development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within midbrain development	IEA Inferred from Electronic Annotation more info
involved_in midbrain development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within myoblast differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within myotube differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of T cell differentiation in thymus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of T cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of alpha-beta T cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of cell migration	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cell migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cholesterol efflux	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cholesterol efflux	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of dopaminergic neuron differentiation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of gene expression	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of kidney smooth muscle cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of kidney smooth muscle cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of mesenchymal cell apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of neuron differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of proteasomal ubiquitin-dependent protein catabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of protein catabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of transcription elongation by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of ureter smooth muscle cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of ureter smooth muscle cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative thymic T cell selection	IEA Inferred from Electronic Annotation more info
involved_in negative thymic T cell selection	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within neural crest cell migration	IEA Inferred from Electronic Annotation more info
involved_in neural crest cell migration	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within neuroblast proliferation	IEA Inferred from Electronic Annotation more info
involved_in neuroblast proliferation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of neuron differentiation	IEA Inferred from Electronic Annotation more info
involved_in neuron differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within neuron fate commitment	IEA Inferred from Electronic Annotation more info
involved_in neuron fate commitment	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within odontogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within odontogenesis of dentin-containing tooth	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within oligodendrocyte development	IEA Inferred from Electronic Annotation more info
involved_in oligodendrocyte differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within oligodendrocyte differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within osteoblast development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within pancreas development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within pattern specification process	IEA Inferred from Electronic Annotation more info
involved_in pattern specification process	IEA Inferred from Electronic Annotation more info
involved_in pattern specification process	ISS Inferred from Sequence or Structural Similarity more info
involved_in polarity specification of anterior/posterior axis	IEA Inferred from Electronic Annotation more info
involved_in polarity specification of anterior/posterior axis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of T cell differentiation in thymus	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of T cell differentiation in thymus	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of alpha-beta T cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of alpha-beta T cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of astrocyte differentiation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell division	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of cell population proliferation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of cell population proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell population proliferation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of cerebellar granule cell precursor proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of epithelial cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of epithelial cell proliferation involved in prostate gland development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of gene expression	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of immature T cell proliferation in thymus	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of immature T cell proliferation in thymus	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of kidney smooth muscle cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of kidney smooth muscle cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of mesenchymal cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of mesenchymal cell proliferation involved in ureter development	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of mesenchymal cell proliferation involved in ureter development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of neuroblast proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of oligodendrocyte differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of protein import into nucleus	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of sclerotome development	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of skeletal muscle cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of skeletal muscle tissue development	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of smoothened signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of smoothened signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of striated muscle cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of ureter smooth muscle cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of ureter smooth muscle cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive thymic T cell selection	IEA Inferred from Electronic Annotation more info
involved_in positive thymic T cell selection	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within primary prostatic bud elongation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within prostate epithelial cord elongation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within prostate gland development	IEA Inferred from Electronic Annotation more info
involved_in prostate gland development	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein autoprocessing	IEA Inferred from Electronic Annotation more info
acts_upstream_of protein import into nucleus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within protein localization to nucleus	IEA Inferred from Electronic Annotation more info
involved_in proteolysis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of cell population proliferation	IEA Inferred from Electronic Annotation more info
involved_in regulation of cell population proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of developmental process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of epithelial cell proliferation involved in prostate gland development	IEA Inferred from Electronic Annotation more info
involved_in regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of gene expression	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of glial cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of mesenchymal cell proliferation involved in prostate gland development	IEA Inferred from Electronic Annotation more info
involved_in regulation of nodal signaling pathway	NAS Non-traceable Author Statement more info	PubMed
involved_in regulation of odontogenesis	IEA Inferred from Electronic Annotation more info
involved_in regulation of odontogenesis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of prostatic bud formation	IEA Inferred from Electronic Annotation more info
involved_in regulation of protein localization to nucleus	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of proteolysis	IEA Inferred from Electronic Annotation more info
involved_in regulation of proteolysis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of stem cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within respiratory tube development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within right lung development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within roof of mouth development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within salivary gland cavitation	IEA Inferred from Electronic Annotation more info
involved_in self proteolysis	IEA Inferred from Electronic Annotation more info
involved_in self proteolysis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of skeletal muscle cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within skeletal muscle fiber differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of skeletal muscle tissue development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within skin development	IEA Inferred from Electronic Annotation more info
involved_in smooth muscle tissue development	IEP Inferred from Expression Pattern more info	PubMed
involved_in smoothened signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in smoothened signaling pathway	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within smoothened signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in smoothened signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in smoothened signaling pathway	IEP Inferred from Expression Pattern more info	PubMed
involved_in smoothened signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in somite development	IEA Inferred from Electronic Annotation more info
involved_in somite development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within spinal cord dorsal/ventral patterning	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within spinal cord motor neuron differentiation	IEA Inferred from Electronic Annotation more info
involved_in stem cell development	IEA Inferred from Electronic Annotation more info
involved_in stem cell development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within stem cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within striated muscle cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within striated muscle tissue development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within telencephalon regionalization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within thalamus development	IEA Inferred from Electronic Annotation more info
involved_in thymus development	IEA Inferred from Electronic Annotation more info
involved_in thymus development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within thyroid gland development	IEA Inferred from Electronic Annotation more info
involved_in tissue development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within trachea development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within trachea morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within tracheoesophageal septum formation	IEA Inferred from Electronic Annotation more info
acts_upstream_of trunk neural crest cell migration	IEA Inferred from Electronic Annotation more info
involved_in tube development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within vasculature development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within vasculogenesis	IEA Inferred from Electronic Annotation more info
involved_in vasculogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in ventral midline development	TAS Traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi apparatus	IDA Inferred from Direct Assay more info	PubMed
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
located_in cell surface	IEA Inferred from Electronic Annotation more info
located_in cell surface	ISS Inferred from Sequence or Structural Similarity more info
located_in cytosol	TAS Traceable Author Statement more info
located_in endoplasmic reticulum	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum lumen	TAS Traceable Author Statement more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in extracellular matrix	HDA more info	PubMed
located_in extracellular matrix	IEA Inferred from Electronic Annotation more info
located_in extracellular region	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular region	IEA Inferred from Electronic Annotation more info
located_in extracellular region	TAS Traceable Author Statement more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular space	IEA Inferred from Electronic Annotation more info
located_in extracellular space	ISS Inferred from Sequence or Structural Similarity more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in membrane raft	IEA Inferred from Electronic Annotation more info
located_in membrane raft	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	TAS Traceable Author Statement more info

General protein information

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Preferred Names: sonic hedgehog protein

Names: shh unprocessed N-terminal signaling and C-terminal autoprocessing domains; sonic hedgehog homolog

NCBI Reference Sequences (RefSeq)

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NEW Try the new Transcript table

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.

Genomic

NG_007504.2 RefSeqGene

Range

4811..17294

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_000193.4 → NP_000184.1 sonic hedgehog protein isoform 1 preproprotein

See identical proteins and their annotated locations for NP_000184.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).

Source sequence(s)

AC078834, BX109787, BX452210, BY797055, L38518

Consensus CDS

CCDS5942.1

UniProtKB/Swiss-Prot

A4D247, Q15465, Q75MC9

UniProtKB/TrEMBL

D9ZGF9

Related

ENSP00000297261.2, ENST00000297261.7

Conserved Domains (3) summary

cd00081
Location:198 → 363

Hint; Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein, ...

pfam01079
Location:187 → 448

Hint; Hint module

pfam01085
Location:39 → 184

HH_signal; Hedgehog amino-terminal signalling domain
NM_001310462.2 → NP_001297391.1 sonic hedgehog protein isoform 2

Status: REVIEWED

Description

Transcript Variant: This variant (2) differs in the 5' and 3' UTRs and has multiple coding region differences, compared to variant 1. It encodes isoform 2 which has a shorter and distinct N-terminus and a shorter and distinct C-terminus, compared to isoform 1.

Source sequence(s)

AC078834, AI192528, AY927452, AY927455

UniProtKB/TrEMBL

C9JC48

Related

ENSP00000396621.1, ENST00000430104.5

Conserved Domains (1) summary

pfam01085
Location:12 → 97

HH_signal; Hedgehog amino-terminal signalling domain

RNA

NR_132318.2 RNA Sequence

Status: REVIEWED

Description

Transcript Variant: This variant (3) uses an alternate 5' and 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AC078834, AI192528, AY927453, AY927454, L38518

Related

ENST00000441114.5
NR_132319.2 RNA Sequence

Status: REVIEWED

Description

Transcript Variant: This variant (4) uses an alternate 5' and 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AC078834, AI192528, AY927453

Related

ENST00000435425.1

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000007.14 Reference GRCh38.p14 Primary Assembly

Range

155799980..155812463 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_047420718.1 → XP_047276674.1 sonic hedgehog protein isoform X2
XM_011516479.3 → XP_011514781.1 sonic hedgehog protein isoform X1

See identical proteins and their annotated locations for XP_011514781.1

Conserved Domains (3) summary

cd00081
Location:111 → 276

Hint; Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein, ...

pfam01079
Location:100 → 361

Hint; Hint module

pfam01085
Location:12 → 97

HH_signal; Hedgehog amino-terminal signalling domain
XM_011516480.3 → XP_011514782.1 sonic hedgehog protein isoform X1

See identical proteins and their annotated locations for XP_011514782.1

Conserved Domains (3) summary

cd00081
Location:111 → 276

Hint; Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein, ...

pfam01079
Location:100 → 361

Hint; Hint module

pfam01085
Location:12 → 97

HH_signal; Hedgehog amino-terminal signalling domain