Ptch1 (patched 1) - Rat Genome Database

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Gene: Ptch1 (patched 1) Chinchilla lanigera
Analyze
Symbol: Ptch1
Name: patched 1
RGD ID: 8762701
Description: ENCODES a protein that exhibits cholesterol binding (ortholog); cyclin binding (ortholog); hedgehog family protein binding (ortholog); INVOLVED IN animal organ morphogenesis (ortholog); brain development (ortholog); branching involved in ureteric bud morphogenesis (ortholog); PARTICIPATES IN glypican signaling pathway; Hedgehog signaling pathway; ASSOCIATED WITH Aberrant Crypt Foci (ortholog); acute myeloid leukemia (ortholog); anterior segment dysgenesis 5 (ortholog); FOUND IN apical part of cell (ortholog); axonal growth cone (ortholog); caveola (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542222,362,221 - 22,427,622 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542222,362,330 - 22,418,062 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Aberrant Crypt Foci  (ISO)
acute myeloid leukemia  (ISO)
anterior segment dysgenesis 5  (ISO)
autism spectrum disorder  (ISO)
Axenfeld-Rieger syndrome  (ISO)
basal cell carcinoma  (ISO)
basaloid squamous cell carcinoma  (ISO)
Brain Neoplasms  (ISO)
breast carcinoma  (ISO)
Cardiovascular Abnormalities  (ISO)
cataract  (ISO)
Choroidal Neovascularization  (ISO)
Chronic Experimental Pancreatitis  (ISO)
cleft lip  (ISO)
cleft palate  (ISO)
colorectal adenoma  (ISO)
congenital heart disease  (ISO)
COVID-19  (ISO)
Craniofacial Abnormalities  (ISO)
craniopharyngioma  (ISO)
Craniosynostosis Syndrome, Autosomal Recessive  (ISO)
demyelinating disease  (ISO)
Disproportionate Tall Stature  (ISO)
esophagus squamous cell carcinoma  (ISO)
Experimental Arthritis  (ISO)
familial male-limited precocious puberty  (ISO)
Fanconi anemia  (ISO)
focal dermal hypoplasia  (ISO)
Fraser syndrome 3  (ISO)
gallbladder carcinoma  (ISO)
Gastrointestinal Neoplasms  (ISO)
gastrointestinal stromal tumor  (ISO)
genetic disease  (ISO)
germinoma  (ISO)
hepatocellular carcinoma  (ISO)
hereditary breast ovarian cancer syndrome  (ISO)
Hereditary Neoplastic Syndromes  (ISO)
Hirschsprung's disease  (ISO)
holoprosencephaly  (ISO)
holoprosencephaly 7  (ISO)
human immunodeficiency virus infectious disease  (ISO)
hydrocephalus  (ISO)
hyperglycemia  (ISO)
Hyperoxic Lung Injury  (ISO)
intellectual disability  (ISO)
lung adenocarcinoma  (ISO)
lung squamous cell carcinoma  (ISO)
Macrocephaly  (ISO)
medulloblastoma  (ISO)
microphthalmia  (ISO)
Multiple Basal Cell Carcinoma  (ISO)
myopia  (ISO)
nasopharyngitis  (ISO)
Neoplasm Metastasis  (ISO)
neuroblastoma  (ISO)
nevoid basal cell carcinoma syndrome  (ISO)
nevoid basal cell carcinoma syndrome 1  (ISO)
omphalocele  (ISO)
ovarian cancer  (ISO)
pancreatic cancer  (ISO)
Patterson Stevenson Syndrome  (ISO)
Peters anomaly  (ISO)
Pituitary Stalk Interruption Syndrome  (ISO)
Postaxial Polydactyly  (ISO)
Preaxial Polydactyly II  (ISO)
Precocious Puberty  (ISO)
Primitive Neuroectodermal Tumors  (ISO)
retinoblastoma  (ISO)
rhabdomyosarcoma  (ISO)
Skin Neoplasms  (ISO)
spina bifida  (ISO)
stomach cancer  (ISO)
Subarachnoid Hemorrhage  (ISO)
syndromic microphthalmia 5  (ISO)
Turner syndrome  (ISO)
uterine fibroid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
animal organ morphogenesis  (ISO)
brain development  (ISO)
branching involved in ureteric bud morphogenesis  (ISO)
cell differentiation involved in kidney development  (ISO)
cell fate determination  (ISO)
cell proliferation involved in metanephros development  (ISO)
cellular response to cholesterol  (ISO)
commissural neuron axon guidance  (ISO)
dorsal/ventral neural tube patterning  (ISO)
dorsal/ventral pattern formation  (ISO)
embryonic limb morphogenesis  (ISO)
embryonic organ development  (ISO)
epidermal cell fate specification  (ISO)
epidermis development  (ISO)
epithelial cell proliferation  (ISO)
glucose homeostasis  (ISO)
heart morphogenesis  (ISO)
hindlimb morphogenesis  (ISO)
in utero embryonic development  (ISO)
keratinocyte proliferation  (ISO)
limb morphogenesis  (ISO)
liver regeneration  (ISO)
mammary gland development  (ISO)
mammary gland duct morphogenesis  (ISO)
mammary gland epithelial cell differentiation  (ISO)
metanephric collecting duct development  (ISO)
negative regulation of cell division  (ISO)
negative regulation of cell population proliferation  (ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of epithelial cell proliferation  (ISO)
negative regulation of keratinocyte proliferation  (ISO)
negative regulation of multicellular organism growth  (ISO)
negative regulation of osteoblast differentiation  (ISO)
negative regulation of smoothened signaling pathway  (ISO)
negative regulation of stem cell proliferation  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
neural plate axis specification  (ISO)
neural tube closure  (ISO)
neural tube formation  (ISO)
neural tube patterning  (ISO)
pattern specification process  (ISO)
pharyngeal system development  (ISO)
positive regulation of cholesterol efflux  (ISO)
positive regulation of DNA-templated transcription  (ISO)
positive regulation of epidermal cell differentiation  (ISO)
prostate gland development  (ISO)
protein localization to plasma membrane  (ISO)
protein processing  (ISO)
regulation of cell population proliferation  (ISO)
regulation of growth  (ISO)
regulation of mitotic cell cycle  (ISO)
regulation of protein localization  (ISO)
response to chlorate  (ISO)
response to estradiol  (ISO)
response to mechanical stimulus  (ISO)
response to organic cyclic compound  (ISO)
response to retinoic acid  (ISO)
response to xenobiotic stimulus  (ISO)
signal transduction  (ISO)
smooth muscle tissue development  (ISO)
somite development  (ISO)
spermatid development  (ISO)
spinal cord motor neuron differentiation  (ISO)
stem cell proliferation  (ISO)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Ptch1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542222,362,221 - 22,427,622 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542222,362,330 - 22,418,062 (-)NCBIChiLan1.0ChiLan1.0
PTCH1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38995,442,980 - 95,516,971 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl995,442,980 - 95,517,057 (-)EnsemblGRCh38hg38GRCh38
GRCh37998,205,262 - 98,279,253 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36997,245,085 - 97,319,068 (-)NCBINCBI36Build 36hg18NCBI36
Build 34995,285,954 - 95,350,386NCBI
Celera968,646,306 - 68,719,962 (-)NCBICelera
Cytogenetic Map9q22.32NCBI
HuRef967,814,741 - 67,888,045 (-)NCBIHuRef
CHM1_1998,351,712 - 98,425,709 (-)NCBICHM1_1
T2T-CHM13v2.09107,612,621 - 107,686,610 (-)NCBIT2T-CHM13v2.0
Ptch1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391363,656,142 - 63,721,274 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1363,656,142 - 63,721,412 (-)EnsemblGRCm39 Ensembl
GRCm381363,508,328 - 63,573,460 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1363,508,328 - 63,573,598 (-)EnsemblGRCm38mm10GRCm38
MGSCv371363,612,841 - 63,666,828 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361363,520,755 - 63,574,742 (-)NCBIMGSCv36mm8
Celera1365,162,237 - 65,216,237 (-)NCBICelera
Cytogenetic Map13B3NCBI
cM Map1332.8NCBI
Ptch1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8171,548,449 - 1,613,461 (+)NCBIGRCr8
mRatBN7.2171,542,705 - 1,607,730 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl171,542,877 - 1,607,333 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx171,561,414 - 1,626,441 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0173,104,008 - 3,169,034 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0171,558,861 - 1,623,889 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0171,032,242 - 1,085,885 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl171,029,048 - 1,093,873 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0171,025,798 - 1,079,561 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4177,088,234 - 7,142,459 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera17917,710 - 971,638 (-)NCBICelera
Cytogenetic Map17p14NCBI
PTCH1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21143,932,644 - 44,006,817 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1943,935,021 - 44,009,196 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0966,542,675 - 66,616,820 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1994,668,792 - 94,741,517 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl994,668,365 - 94,741,453 (-)Ensemblpanpan1.1panPan2
PTCH1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1171,246,750 - 71,309,036 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl171,238,195 - 71,305,662 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha172,001,309 - 72,071,860 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0171,542,960 - 71,613,625 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl171,542,581 - 71,613,625 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1171,355,076 - 71,425,574 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0171,118,402 - 71,189,186 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0171,824,991 - 71,895,587 (+)NCBIUU_Cfam_GSD_1.0
Ptch1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049445,013,677 - 5,072,720 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366264,241,908 - 4,309,476 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366264,241,993 - 4,301,919 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTCH1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1026,627,425 - 26,703,223 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11026,627,165 - 26,703,225 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21030,839,486 - 30,915,228 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103219825
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.112107,580,895 - 107,656,443 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl12107,590,663 - 107,652,985 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366670535 - 26,483 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ptch1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475316,935,251 - 16,995,389 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475316,929,503 - 16,995,255 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000024873   ⟹   ENSCLAP00000024635
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495542222,362,221 - 22,427,299 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000024874   ⟹   ENSCLAP00000024636
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495542222,362,221 - 22,418,901 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000024875   ⟹   ENSCLAP00000024637
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495542222,396,065 - 22,427,622 (-)Ensembl
RefSeq Acc Id: XM_013514312   ⟹   XP_013369766
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542222,362,330 - 22,418,062 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013369766 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000024635
  ENSCLAP00000024635.1
  ENSCLAP00000024636.1
  ENSCLAP00000024637.1
Reference Protein Sequences
RefSeq Acc Id: XP_013369766   ⟸   XM_013514312
- UniProtKB: A0A8C2W5M9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000024637   ⟸   ENSCLAT00000024875
RefSeq Acc Id: ENSCLAP00000024635   ⟸   ENSCLAT00000024873
RefSeq Acc Id: ENSCLAP00000024636   ⟸   ENSCLAT00000024874
Protein Domains
SSD


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000016919 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000024873 ENTREZGENE
  ENSCLAT00000024873.1 UniProtKB/TrEMBL
  ENSCLAT00000024874.1 UniProtKB/TrEMBL
  ENSCLAT00000024875.1 UniProtKB/TrEMBL
Gene3D-CATH Multidrug efflux transporter AcrB transmembrane domain UniProtKB/TrEMBL
InterPro Ptc/Disp UniProtKB/TrEMBL
  SSD UniProtKB/TrEMBL
  TM_rcpt_patched UniProtKB/TrEMBL
NCBI Gene Ptch1 ENTREZGENE
PANTHER PROTEIN PATCHED UniProtKB/TrEMBL
  PROTEIN PATCHED HOMOLOG 1 UniProtKB/TrEMBL
Pfam Patched UniProtKB/TrEMBL
PROSITE SSD UniProtKB/TrEMBL
Superfamily-SCOP Multidrug efflux transporter AcrB transmembrane domain UniProtKB/TrEMBL
UniProt A0A8C2W5M9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2W8E6_CHILA UniProtKB/TrEMBL
  A0A8C2WAI2_CHILA UniProtKB/TrEMBL