Free for academic non-profit institutions. Other users need a Commercial license

Aliases for PTCH2 Gene

Aliases for PTCH2 Gene

  • Patched 2 2 3 5
  • PTC2 3 4
  • Patched (Drosophila) Homolog 2 2
  • Patched Homolog 2 (Drosophila) 2
  • Protein Patched Homolog 2 3
  • Patched Homolog 2 3

External Ids for PTCH2 Gene

Previous GeneCards Identifiers for PTCH2 Gene

  • GC01M045015
  • GC01M044288
  • GC01M044716
  • GC01M044702
  • GC01M044703
  • GC01M044957
  • GC01M045060
  • GC01M045286
  • GC01M043398

Summaries for PTCH2 Gene

Entrez Gene Summary for PTCH2 Gene

  • This gene encodes a transmembrane receptor of the patched gene family. The encoded protein may function as a tumor suppressor in the hedgehog signaling pathway. Alterations in this gene have been associated with nevoid basal cell carcinoma syndrome, basal cell carcinoma, medulloblastoma, and susceptibility to congenital macrostomia. Alternatively spliced transcript variants have been described.[provided by RefSeq, Oct 2009]

GeneCards Summary for PTCH2 Gene

PTCH2 (Patched 2) is a Protein Coding gene. Diseases associated with PTCH2 include Medulloblastoma and Basal Cell Nevus Syndrome. Among its related pathways are Wnt Signaling Pathways: beta-Catenin-independent Wnt/Ca2+ Signaling and Other Non-canonical Wnt Signaling Pathways and Presynaptic function of Kainate receptors. GO annotations related to this gene include hedgehog receptor activity and hedgehog family protein binding. An important paralog of this gene is PTCH1.

UniProtKB/Swiss-Prot for PTCH2 Gene

  • May have a role in epidermal development. May act as a receptor for Sonic hedgehog (SHH).

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PTCH2 Gene

Genomics for PTCH2 Gene

Regulatory Elements for PTCH2 Gene

Enhancers for PTCH2 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01G045409 1.6 FANTOM5 Ensembl ENCODE 28.3 -568.2 -568229 3.8 FEZF1 ZNF2 ZNF121 ZNF766 GATA2 ELK1 FOS KLF7 TSHZ1 ZNF662 TOE1 ZSWIM5 PTCH2 PRDX1 RPS8 TESK2 LURAP1 RPL7AP16 RPS15AP10 HMGB1P48
GH01G044404 1.3 ENCODE dbSUPER 20.1 +437.5 437492 2.0 ARID4B SIN3A FEZF1 ZNF2 ZNF302 ZNF416 ZNF143 MCM3 KAT8 ZNF579 LOC101929609 ZSWIM5 PTCH2 DMAP1 ATP6V0B RNF220 MIR5584
GH01G043860 1.3 ENCODE dbSUPER 19.4 +981.5 981516 1.8 PKNOX1 FOXA2 SIN3A FEZF1 ZNF2 YY1 ZNF121 GLIS2 FOS ZHX2 LOC101929609 SZT2 ARTN PTCH2 ST3GAL3 IPO13 LOC101929592 DPH2 KDM4A-AS1 ATP6V0B
GH01G044325 2.3 Ensembl ENCODE 10.2 +515.2 515180 4.0 FOXA2 PKNOX1 ARID4B SIN3A FEZF1 ZNF2 YY1 SLC30A9 FOS ZNF263 SZT2 ZSWIM5 DMAP1 ERI3 LOC101929609 PTCH2 GC01P044305
GH01G044034 2.1 VISTA Ensembl ENCODE dbSUPER 10.2 +806.9 806875 3.0 HDGF HNRNPUL1 PKNOX1 CREB3L1 ARNT SIN3A ZNF2 ZNF766 ZNF143 KLF13 LOC101929609 PTCH2 ENSG00000230615 KLF17 SLC6A9
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PTCH2 on UCSC Golden Path with GeneCards custom track

Promoters for PTCH2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000005805 -237 1000 PKNOX1 AGO1 FEZF1 ZNF2 GLIS2 ZNF263 SP3 NFYC ZNF623 SMARCA4

Genomic Location for PTCH2 Gene

44,819,844 bp from pter
44,843,063 bp from pter
23,220 bases
Minus strand

Genomic View for PTCH2 Gene

Genes around PTCH2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PTCH2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PTCH2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PTCH2 Gene

Proteins for PTCH2 Gene

  • Protein details for PTCH2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein patched homolog 2
    Protein Accession:
    Secondary Accessions:
    • O95341
    • O95856
    • Q53Z57
    • Q5QP87
    • Q6UX14

    Protein attributes for PTCH2 Gene

    1203 amino acids
    Molecular mass:
    130544 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PTCH2 Gene


neXtProt entry for PTCH2 Gene

Post-translational modifications for PTCH2 Gene

  • Glycosylation at isoforms=2370 and Asn812
  • Modification sites at PhosphoSitePlus

Other Protein References for PTCH2 Gene

No data available for DME Specific Peptides for PTCH2 Gene

Domains & Families for PTCH2 Gene

Protein Domains for PTCH2 Gene

Suggested Antigen Peptide Sequences for PTCH2 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the patched family.
  • Belongs to the patched family.
genes like me logo Genes that share domains with PTCH2: view

No data available for Gene Families for PTCH2 Gene

Function for PTCH2 Gene

Molecular function for PTCH2 Gene

GENATLAS Biochemistry:
Drosophila segment polarity gene patched (PTC) homolog 2,expressed at high levels in the skin and spermatocytes,binding to all hedgehog family members,forming complex with SMOH and likely with Desert hedgehog receptor,putative tumor suppressor gene in basal cell carcinoma and medulloblastoma
UniProtKB/Swiss-Prot Function:
May have a role in epidermal development. May act as a receptor for Sonic hedgehog (SHH).

Gene Ontology (GO) - Molecular Function for PTCH2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005119 smoothened binding IPI 9811851
GO:0008158 hedgehog receptor activity TAS 11001584
GO:0097108 hedgehog family protein binding TAS 11001584
genes like me logo Genes that share ontologies with PTCH2: view
genes like me logo Genes that share phenotypes with PTCH2: view

Human Phenotype Ontology for PTCH2 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for PTCH2 Gene

MGI Knock Outs for PTCH2:

Animal Model Products

  • Taconic Biosciences Mouse Models for PTCH2

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for PTCH2 Gene

Localization for PTCH2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PTCH2 Gene

Membrane; Multi-pass membrane protein.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PTCH2 gene
Compartment Confidence
plasma membrane 3
nucleus 1

Gene Ontology (GO) - Cellular Components for PTCH2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with PTCH2: view

Pathways & Interactions for PTCH2 Gene

genes like me logo Genes that share pathways with PTCH2: view

Pathways by source for PTCH2 Gene

SIGNOR curated interactions for PTCH2 Gene

Is activated by:
Is inactivated by:

Gene Ontology (GO) - Biological Process for PTCH2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001709 cell fate determination IEA --
GO:0007165 signal transduction IEA --
GO:0008544 epidermis development IEA --
GO:0009957 epidermal cell fate specification IEA --
GO:0042633 hair cycle IEA --
genes like me logo Genes that share ontologies with PTCH2: view

Drugs & Compounds for PTCH2 Gene

No Compound Related Data Available

Transcripts for PTCH2 Gene

mRNA/cDNA for PTCH2 Gene

Unigene Clusters for PTCH2 Gene

Patched 2:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PTCH2 Gene

No ASD Table

Relevant External Links for PTCH2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for PTCH2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PTCH2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PTCH2 Gene

This gene is overexpressed in Ovary (x5.0), Testis (x4.9), and Nerve - Tibial (x4.5).

Protein differential expression in normal tissues from HIPED for PTCH2 Gene

This gene is overexpressed in Adipocyte (62.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for PTCH2 Gene

Protein tissue co-expression partners for PTCH2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PTCH2 Gene:


SOURCE GeneReport for Unigene cluster for PTCH2 Gene:


Evidence on tissue expression from TISSUES for PTCH2 Gene

  • Thyroid gland(2.2)

Phenotype-based relationships between genes and organs from Gene ORGANizer for PTCH2 Gene

Germ Layers:
  • ectoderm
  • endoderm
  • mesoderm
  • cardiovascular
  • digestive
  • immune
  • integumentary
  • nervous
  • reproductive
  • respiratory
  • skeletal muscle
  • skeleton
Head and neck:
  • brain
  • cerebellum
  • cerebrospinal fluid
  • cranial nerve
  • ear
  • eye
  • face
  • forehead
  • head
  • jaw
  • lip
  • mandible
  • maxilla
  • meninges
  • mouth
  • neck
  • nose
  • skull
  • tooth
  • chest wall
  • clavicle
  • heart
  • heart valve
  • lung
  • rib
  • rib cage
  • scapula
  • sternum
  • intestine
  • large intestine
  • small intestine
  • stomach
  • ovary
  • pelvis
  • ankle
  • arm
  • digit
  • elbow
  • femur
  • fibula
  • finger
  • foot
  • forearm
  • hand
  • hip
  • humerus
  • knee
  • lower limb
  • radius
  • shin
  • shoulder
  • thigh
  • tibia
  • toe
  • ulna
  • upper limb
  • wrist
  • blood
  • blood vessel
  • peripheral nervous system
  • skin
  • spinal column
  • spinal cord
  • vertebrae
genes like me logo Genes that share expression patterns with PTCH2: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt for PTCH2 Gene

Orthologs for PTCH2 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for PTCH2 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia PTCH2 34 35
  • 99.52 (n)
(Bos Taurus)
Mammalia PTCH2 34 35
  • 91.43 (n)
(Canis familiaris)
Mammalia PTCH2 34 35
  • 91.16 (n)
(Mus musculus)
Mammalia Ptch2 34 16 35
  • 88.23 (n)
(Monodelphis domestica)
Mammalia PTCH2 35
  • 74 (a)
(Gallus gallus)
Aves PTCH2 35
  • 60 (a)
(Anolis carolinensis)
Reptilia PTCH2 35
  • 59 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xptch-2 34
(Danio rerio)
Actinopterygii ptch2 35
  • 55 (a)
ptc1 34
fruit fly
(Drosophila melanogaster)
Insecta ptc 36 35
  • 37 (a)
(Caenorhabditis elegans)
Secernentea ptc-1 36 35
  • 37 (a)
ptc-2 36 35
  • 32 (a)
ptc-3 35
  • 29 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes NCR1 35
  • 15 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 38 (a)
Species where no ortholog for PTCH2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for PTCH2 Gene

Gene Tree for PTCH2 (if available)
Gene Tree for PTCH2 (if available)

Paralogs for PTCH2 Gene

Paralogs for PTCH2 Gene

(1) SIMAP similar genes for PTCH2 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with PTCH2: view

Variants for PTCH2 Gene

Sequence variations from dbSNP and Humsavar for PTCH2 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs121434397 Pathogenic 44,827,617(-) GCCTC(A/G)GGGCA reference, missense
rs56126236 Pathogenic 44,829,444(+) ACTTC(-/AG)AGAAC reference, frameshift-variant
rs587776628 Pathogenic 44,823,064(+) GTGTG(A/G)TCACC intron-variant
rs11573586 Likely benign 44,828,037(-) AAGCC(A/C/T)ACCTG reference, missense
rs760548568 Likely benign 44,827,883(+) GATAG(A/C/T)GGGCG reference, missense

Structural Variations from Database of Genomic Variants (DGV) for PTCH2 Gene

Variant ID Type Subtype PubMed ID
nsv461406 CNV loss 19166990
nsv546145 CNV loss 21841781
nsv546146 CNV loss 21841781

Variation tolerance for PTCH2 Gene

Residual Variation Intolerance Score: 24.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.57; 65.10% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PTCH2 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PTCH2 Gene

Disorders for PTCH2 Gene

MalaCards: The human disease database

(8) MalaCards diseases for PTCH2 Gene - From: OMIM, ClinVar, GeneTests, Orphanet, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
  • medulloblastoma, desmoplastic
basal cell nevus syndrome
  • nevoid basal cell carcinoma syndrome
macrostomia, isolated
  • commissural facial cleft
basal cell carcinoma 1
  • basal cell carcinoma, somatic
medulloblastoma, ptch2-related
  • mdb
- elite association - COSMIC cancer census association via MalaCards
Search PTCH2 in MalaCards View complete list of genes associated with diseases


  • Basal cell carcinoma (BCC) [MIM:605462]: A common malignant skin neoplasm that typically appears on hair-bearing skin, most commonly on sun-exposed areas. BCC is slow growing and rarely metastasizes, but has potentialities for local invasion and destruction. It usually develops as a flat, firm, pale area that is small, raised, pink or red, translucent, shiny, and waxy, and the area may bleed following minor injury. Tumor size can vary from a few millimeters to several centimeters in diameter. {ECO:0000269 PubMed:9931336}. Note=The disease is caused by mutations affecting the gene represented in this entry.
  • Medulloblastoma (MDB) [MIM:155255]: Malignant, invasive embryonal tumor of the cerebellum with a preferential manifestation in children. {ECO:0000269 PubMed:9931336}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for PTCH2

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with PTCH2: view

No data available for Genatlas for PTCH2 Gene

Publications for PTCH2 Gene

  1. Isolation and characterization of human patched 2 (PTCH2), a putative tumour suppressor gene in basal cell carcinoma and medulloblastoma on chromosome 1p32. (PMID: 9931336) Smyth I. … Wainwright B.J. (Hum. Mol. Genet. 1999) 2 3 4 64
  2. Characterization of two patched receptors for the vertebrate hedgehog protein family. (PMID: 9811851) Carpenter D. … de Sauvage F.J. (Proc. Natl. Acad. Sci. U.S.A. 1998) 2 3 4 64
  3. Maternal genes and facial clefts in offspring: a comprehensive search for genetic associations in two population-based cleft studies from Scandinavia. (PMID: 20634891) Jugessur A. … Murray J.C. (PLoS ONE 2010) 3 46 64
  4. [Studies on keratocystic odontogenic tumors]. (PMID: 19221557) Li T.J. … Xu L.L. (Beijing Da Xue Xue Bao 2009) 3 46 64
  5. Genetic polymorphisms in 85 DNA repair genes and bladder cancer risk. (PMID: 19237606) Michiels S. … Benhamou S. (Carcinogenesis 2009) 3 46 64

Products for PTCH2 Gene

Sources for PTCH2 Gene

Loading form....