Ptch1 patched 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ptch1provided by RGD
Official Full Name: patched 1provided by RGD
Primary source: RGD:621425
See related: Ensembl:ENSRNOG00000019354 AllianceGenome:RGD:621425
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Ptch; Ptch2
Summary: Predicted to enable several functions, including cholesterol binding activity; cyclin binding activity; and signaling receptor binding activity. Involved in several processes, including commissural neuron axon guidance; gland development; and response to estradiol. Located in growth cone; nucleus; and postsynaptic density. Human ortholog(s) of this gene implicated in basal cell carcinoma; holoprosencephaly; holoprosencephaly 7; and nevoid basal cell carcinoma syndrome. Orthologous to human PTCH1 (patched 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 98.1), Kidney (RPKM 82.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 17p14

Exon count:: 28

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	17	NC_086035.1 (1548449..1613461)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	17	NC_051352.1 (1542705..1607730)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	17	NC_005116.4 (1032242..1085885, complement)

Chromosome 17 - NC_086035.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Enhancement of biochemical and genomic pathways through lycopene-loaded nano-liposomes: Alleviating insulin resistance, hepatic steatosis, and autophagy in obese rats with non-alcoholic fatty liver disease: Involvement of SMO, GLI-1, and PTCH-1 genes.
Title: Enhancement of biochemical and genomic pathways through lycopene-loaded nano-liposomes: Alleviating insulin resistance, hepatic steatosis, and autophagy in obese rats with non-alcoholic fatty liver disease: Involvement of SMO, GLI-1, and PTCH-1 genes.
Expression of the hippocampal PTCH during early abstinence is associated with drinking patterns in a rat model of voluntary alcohol intake.
Title: Expression of the hippocampal PTCH during early abstinence is associated with drinking patterns in a rat model of voluntary alcohol intake.
miR-511-3p promotes hepatic sinusoidal obstruction syndrome by activating hedgehog pathway via targeting Ptch1.
Title: miR-511-3p promotes hepatic sinusoidal obstruction syndrome by activating hedgehog pathway via targeting Ptch1.
Inhibition of microRNA-802-5p inhibits myocardial apoptosis after myocardial infarction via Sonic Hedgehog signaling pathway by targeting PTCH1.
Title: Inhibition of microRNA-802-5p inhibits myocardial apoptosis after myocardial infarction via Sonic Hedgehog signaling pathway by targeting PTCH1.
The Shh/Ptch1 pathway plays an essential role in the model of VD.
Title: DL-3-n-butylphthalide alleviates vascular cognitive impairment by regulating endoplasmic reticulum stress and the Shh/Ptch1 signaling-pathway in rats.
Study provide evidence that spatiotemporal expression of Shh, Ptch1, and Gli1 was imbalanced during development of the lumbosacral spinal cord in rat embryos with ethylenethiourea induced anorectal malformations (ARMs). This imbalance may contribute to maldevelopment of the lumbosacral spinal cord and provide a molecular explanation for the complications observed in patients with ARMs.
Title: The Expression of Shh, Ptch1, and Gli1 in the Developing Caudal Spinal Cord of Fetal Rats With Anorectal Malformations.
our results highlight miR-369-5p mediated DNMT3A epigenetic silencing of Patched1 as a mechanism of fibroblast proliferation in cardiac fibrosis
Title: Epigenetic aberrations of miR-369-5p and DNMT3A control Patched1 signal pathway in cardiac fibrosis.
in adjuvant arthritis fibroblast-like synoviocytes, MeCP2 mediates hypermethylation of PTCH1 gene and decreases the expression of PTCH1 protein, thus activating Hedgehog signaling pathway and increasing secretion of IL-6 and TNF-alpha.
Title: MeCP2 Regulates PTCH1 Expression Through DNA Methylation in Rheumatoid Arthritis.
Activation of the Hh signaling pathway by silencing PTC1 and PTC2 may reduce inflammation and may ultimately promote spinal cord injury recovery
Title: Lentivirus-mediated silencing of the PTC1 and PTC2 genes promotes recovery from spinal cord injury by activating the Hedgehog signaling pathway in a rat model.
PTCH1 modifications Gli1 protein activity are a cause for Hepatic stellate cell activation.
Title: DNA methylation and MeCP2 regulation of PTCH1 expression during rats hepatic fibrosis.

Submit: New GeneRIF Correction See all GeneRIFs (16)

General gene information

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Markers

Ptch1 (e-PCR), detects polymorphism
- UniSTS:498249

UniSTS:465490 (e-PCR)
- UniSTS:465490

Ptch1 (e-PCR), detects polymorphism
- UniSTS:465490

BF387421 (e-PCR)
- UniSTS:244355

BF404235 (e-PCR)
- UniSTS:246973

Ptch1 (e-PCR), detects polymorphism
- UniSTS:516585

Ptch1 (e-PCR), detects polymorphism
- UniSTS:516586

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cholesterol binding	ISO Inferred from Sequence Orthology more info
enables cyclin binding	ISO Inferred from Sequence Orthology more info
enables hedgehog family protein binding	IBA Inferred from Biological aspect of Ancestor more info
enables hedgehog family protein binding	ISO Inferred from Sequence Orthology more info
enables hedgehog receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables heparin binding	ISO Inferred from Sequence Orthology more info
enables patched binding	ISO Inferred from Sequence Orthology more info
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info
enables smoothened binding	IBA Inferred from Biological aspect of Ancestor more info
enables smoothened binding	ISO Inferred from Sequence Orthology more info

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

Component	Evidence Code	Pubs
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in apical part of cell	ISO Inferred from Sequence Orthology more info
located_in axonal growth cone	IDA Inferred from Direct Assay more info	PubMed
located_in caveola	ISO Inferred from Sequence Orthology more info
located_in cilium	ISO Inferred from Sequence Orthology more info
located_in dendritic growth cone	IDA Inferred from Direct Assay more info	PubMed
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in midbody	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: protein patched homolog 1

Names: patched homolog 2

NCBI Reference Sequences (RefSeq)

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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.

mRNA and Protein(s)

NM_001389256.1 → NP_001376185.1 protein patched homolog 1 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000017

UniProtKB/TrEMBL

A0A0G2JVB8

Related

ENSRNOP00000069422.1, ENSRNOT00000086130.2

Conserved Domains (1) summary

TIGR00918
Location:2 → 1140

2A060602; The Eukaryotic (Putative) Sterol Transporter (EST) Family
NM_053566.3 → NP_446018.1 protein patched homolog 1 isoform 1

See identical proteins and their annotated locations for NP_446018.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000017

UniProtKB/TrEMBL

Q6UY90

Related

ENSRNOP00000026287.5, ENSRNOT00000026287.6

Conserved Domains (2) summary

TIGR00918
Location:29 → 1192

2A060602; The Eukaryotic (Putative) Sterol Transporter (EST) Family

pfam12349
Location:448 → 602

Sterol-sensing; Sterol-sensing domain of SREBP cleavage-activation

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086035.1 Reference GRCr8

Range

1548449..1613461

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063276788.1 → XP_063132858.1 protein patched homolog 1 isoform X4
XM_039096137.2 → XP_038952065.1 protein patched homolog 1 isoform X1

Conserved Domains (1) summary

cl25655
Location:1 → 1055

Patched; Patched family
XM_063276787.1 → XP_063132857.1 protein patched homolog 1 isoform X2
XM_039096135.2 → XP_038952063.1 protein patched homolog 1 isoform X3

Conserved Domains (1) summary

cl25655
Location:178 → 1201

Patched; Patched family
XM_039096134.2 → XP_038952062.2 protein patched homolog 1 isoform X1
XM_039096138.1 → XP_038952066.1 protein patched homolog 1 isoform X5

Conserved Domains (1) summary

cl25655
Location:1 → 620

Patched; Patched family