Gene Gene information from NCBI Gene database.
Entrez ID 5727
Gene name Patched 1
Gene symbol PTCH1
Synonyms (NCBI Gene)
BCNSBCNS1NBCCSPTCPTC1PTCHSLC65B1
Chromosome 9
Chromosome location 9q22.32
Summary This gene encodes a member of the patched family of proteins and a component of the hedgehog signaling pathway. Hedgehog signaling is important in embryonic development and tumorigenesis. The encoded protein is the receptor for the secreted hedgehog ligan
SNPs SNP information provided by dbSNP.
188
SNP ID Visualize variation Clinical significance Consequence
rs138911275 G>A Pathogenic, likely-benign Coding sequence variant, non coding transcript variant, missense variant, genic downstream transcript variant
rs142274954 C>T Conflicting-interpretations-of-pathogenicity, likely-benign, uncertain-significance, benign Genic downstream transcript variant, non coding transcript variant, missense variant, coding sequence variant
rs143091773 T>-,TT Pathogenic Genic downstream transcript variant, non coding transcript variant, frameshift variant, coding sequence variant
rs143494325 C>A,G,T Likely-benign, conflicting-interpretations-of-pathogenicity, uncertain-significance, benign Intron variant, genic upstream transcript variant, missense variant, upstream transcript variant, non coding transcript variant, coding sequence variant
rs145867500 A>C,G Likely-benign, pathogenic Stop gained, genic downstream transcript variant, synonymous variant, non coding transcript variant, coding sequence variant
miRNA miRNA information provided by mirtarbase database.
418
miRTarBase ID miRNA Experiments Reference
MIRT006293 hsa-miR-212-3p Luciferase reporter assayqRT-PCRWestern blot 22357618
MIRT006293 hsa-miR-212-3p Luciferase reporter assayqRT-PCRWestern blot 22357618
MIRT006293 hsa-miR-212-3p Luciferase reporter assayqRT-PCRWestern blot 22357618
MIRT006293 hsa-miR-212-3p Luciferase reporter assayqRT-PCRWestern blot 22357618
MIRT006293 hsa-miR-212-3p Luciferase reporter assayqRT-PCRWestern blot 22357618
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
108
GO ID Ontology Definition Evidence Reference
GO:0000122 Process Negative regulation of transcription by RNA polymerase II IMP 16229683
GO:0001658 Process Branching involved in ureteric bud morphogenesis IEA
GO:0001701 Process In utero embryonic development IEA
GO:0001709 Process Cell fate determination IEA
GO:0001841 Process Neural tube formation IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
601309 9585 ENSG00000185920
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q13635
Protein name Protein patched homolog 1 (PTC) (PTC1)
Protein function Acts as a receptor for sonic hedgehog (SHH), indian hedgehog (IHH) and desert hedgehog (DHH). Associates with the smoothened protein (SMO) to transduce the hedgehog's proteins signal. Seems to have a tumor suppressor function, as inactivation of
PDB 6DMB , 6DMO , 6DMY , 6E1H , 6N7G , 6N7H , 6N7K , 6OEU , 6OEV , 6RMG , 6RTW , 6RTX , 6RTY , 6RVC , 6RVD
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF02460 Patched 358 875 Patched family Family
PF02460 Patched 966 1180 Patched family Family
Tissue specificity TISSUE SPECIFICITY: In the adult, expressed in brain, lung, liver, heart, placenta, skeletal muscle, pancreas and kidney. Expressed in tumor cells but not in normal skin.
Sequence
MASAGNAAEPQDRGGGGSGCIGAPGRPAGGGRRRRTGGLRRAAAPDRDYLHRPSYCDAAF
ALEQISKGKATGRKAPLWLRAKFQRLLFKLGCYIQKNCGKFLVVGLLIFGAFAVGLKAAN
LETNVEELWVEVGGRVSRELNYTRQKIGEEAMFNPQLMIQTPKEEGANVLTTEALLQHLD
SALQASRVHVYMYNRQWKLEHLCYKSGELITETGYMDQIIEYLYPCLIITPLDCFWEGAK
LQSGTAYLLGKPPLRWTNFDPLEFLEELKKINYQVDSWEEMLNKAEVGHGYMDRPCLNPA
DPDCPATAPNKNSTKPLDMALVLNGGCHGLSRKYMHWQEELIVGGTVKNSTGKLVSAHAL
QTMFQLMTPKQMYEHFKGYEYVSHINWNEDKAAAILEAWQRTYVEVVHQSVAQNSTQKVL
SFTTTTLDDILKSFSDVSVIRVASGYLLMLAYACLTMLRWDCSKSQGAVGLAGVLLVALS
VAAGLGLCSLIGISFNAATTQVLPFLALGVGVDDVFLLAHAFSETGQNKRIPFEDRTGEC
LKRTGASVALTSISNVTAFFMAALIPIPALRAFSLQAAVVVVFNFAMVLLIFPAILSMDL
YRREDRRLDIFCCFTSPCVSRVIQVEPQAYTDTHDNTRYSPPPPYSSHSFAHETQITMQS
TVQLRTEYDPHTHVYYTTAEPRSEISVQPVTVTQDTLSCQSPESTSSTRDLLSQFSDSSL
HCLEPPCTKWTLSSFAEKHYAPFLLKPKAKVVVIFLFLGLLGVSLYGTTRVRDGLDLTDI
VPRETREYDFIAAQFKYFSFYNMYIVTQKADYPNIQHLLYDLHRSFSNVKYVMLEENKQL
PKMWLHYFRDWLQGLQDAFDSDWETGKIMPNNYKN
GSDDGVLAYKLLVQTGSRDKPIDIS
QLTKQRLVDADGIINPSAFYIYLTAWVSNDPVAYAASQANIRPHRPEWVHDKADYMPETR
LRIPAAEPIEYAQFPFYLNGLRDTSDFVEAIEKVRTICSNYTSLGLSSYPNGYPFLFWEQ
YIGLRHWLLLFISVVLACTFLVCAVFLLNPWTAGIIVMVLALMTVELFGMMGLIGIKLSA
VPVVILIASVGIGVEFTVHVALAFLTAIGDKNRRAVLALEHMFAPVLDGAVSTLLGVLML
AGSEFDFIVRYFFAVLAILTILGVLNGLVLLPVLLSFFGP
YPEVSPANGLNRLPTPSPEP
PPSVVRFAMPPGHTHSGSDSSDSEYSSQTTVSGLSEELRHYEAQQGAGGPAHQVIVEATE
NPVFAHSTVVHPESRHHPPSNPRQQPHLDSGSLPPGRQGQQPRRDPPREGLWPPPYRPRR
DAFEISTEGHSGPSNRARWGPRGARSHNPRNPASTAMGSSVPGYCQPITTVTASASVTVA
VHPPPVPGPGRNPRGGLCPGYPETDHGLFEDPHVPFHVRCERRDSKVEVIELQDVECEER
PRGSSSN
Sequence length 1447
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  cAMP signaling pathway
Hedgehog signaling pathway
Axon guidance
Pathways in cancer
Proteoglycans in cancer
Basal cell carcinoma
  Hedgehog 'off' state
Ligand-receptor interactions
Hedgehog 'on' state
Activation of SMO
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
107
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Anophthalmia-microphthalmia syndrome Likely pathogenic rs869025270 RCV000207370
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Basal cell carcinoma, somatic Pathogenic rs587776689 RCV000008703
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Basal cell carcinoma, susceptibility to, 1 Likely pathogenic; Pathogenic rs151216961, rs1060502277, rs766313615, rs1060502286, rs1564055259, rs376353501, rs1840094606 RCV004574630
RCV005049559
RCV003389327
RCV005398623
RCV001196669
View all (2 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Basal cell nevus syndrome 1 Likely pathogenic; Pathogenic rs1060502268, rs267606984, rs2117956624, rs2118419579, rs2118365442, rs2118041703, rs2136689212, rs2118336503, rs878853849, rs1554695110, rs1298115628, rs2538234385, rs1268572514, rs2538041118, rs2538244596
View all (11 more)
RCV005866985
RCV004576922
RCV004576889
RCV004576890
RCV004576891
View all (21 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Abnormal cardiovascular system morphology Conflicting classifications of pathogenicity ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Acute myeloid leukemia Conflicting classifications of pathogenicity; Likely benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ASTHMA GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ATRIAL FIBRILLATION GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
2-3 toe syndactyly Syndactyly Of The Toes CLINVAR_DG
★☆☆☆☆
Found in Text Mining only
9q22.3 Microdeletion 9q22.3 Microdeletion ORPHANET_DG 23169491
★☆☆☆☆
Found in Text Mining only
Accessory rib Accessory Rib HPO_DG
★☆☆☆☆
Found in Text Mining only
Acquired Kyphoscoliosis Acquired Kyphoscoliosis HPO_DG
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma Adenocarcinoma BEFREE 17461467, 21234763, 26997450
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of pancreas Pancreatic adenocarcinoma BEFREE 28261999
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma, Oxyphilic Adenocarcinoma BEFREE 16595592, 24559275, 28816539
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma, Tubular Adenocarcinoma BEFREE 23371028, 30349383
★☆☆☆☆
Found in Text Mining only
Adenoid Cystic Carcinoma Adenocarcinoma BEFREE 22077640
★☆☆☆☆
Found in Text Mining only
Adenoma Adenoma BEFREE 10646882, 11463498, 15126554, 17639054, 24612059, 26997450
★☆☆☆☆
Found in Text Mining only