PTCHD1 (patched domain containing 1) - Rat Genome Database

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Gene: PTCHD1 (patched domain containing 1) Sus scrofa
Analyze
Symbol: PTCHD1
Name: patched domain containing 1
RGD ID: 14081533
Description: INVOLVED IN excitatory chemical synaptic transmission (ortholog); inhibitory chemical synaptic transmission (ortholog); long-term memory (ortholog); ASSOCIATED WITH amenorrhea (ortholog); attention deficit hyperactivity disorder (ortholog); autism spectrum disorder (ortholog); FOUND IN membrane (inferred); plasma membrane (inferred); synapse (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: patched domain-containing protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX19,507,739 - 19,561,828 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X19,508,501 - 19,563,298 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X20,851,579 - 20,904,599 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
membrane  (IEA)
plasma membrane  (IBA,IEA)
synapse  (IBA,IEA)

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
PTCHD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX19,507,739 - 19,561,828 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X19,508,501 - 19,563,298 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X20,851,579 - 20,904,599 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PTCHD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X23,334,396 - 23,404,374 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX23,334,849 - 23,404,374 (+)EnsemblGRCh38hg38GRCh38
GRCh37X23,352,966 - 23,422,491 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X23,262,906 - 23,324,839 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X23,112,751 - 23,172,076NCBI
CeleraX27,474,669 - 27,536,553 (+)NCBICelera
Cytogenetic MapXp22.11NCBI
HuRefX21,094,048 - 21,155,060 (+)NCBIHuRef
CHM1_1X23,384,049 - 23,445,953 (+)NCBICHM1_1
T2T-CHM13v2.0X22,917,921 - 22,987,936 (+)NCBIT2T-CHM13v2.0
Ptchd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X154,352,732 - 154,407,185 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX154,356,451 - 154,406,810 (-)EnsemblGRCm39 Ensembl
GRCm38X155,569,736 - 155,624,170 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX155,573,455 - 155,623,814 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X152,004,279 - 152,057,870 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X150,914,257 - 150,964,043 (-)NCBIMGSCv36mm8
CeleraX138,872,944 - 138,926,972 (-)NCBICelera
Cytogenetic MapXF3NCBI
cM MapX72.38NCBI
Ptchd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X43,496,907 - 43,548,413 (+)NCBIGRCr8
mRatBN7.2X39,681,910 - 39,733,416 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX39,681,910 - 39,733,519 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX40,905,386 - 40,956,900 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X44,372,699 - 44,424,207 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X42,057,286 - 42,108,794 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X42,558,912 - 42,610,430 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX42,558,931 - 42,614,242 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X42,866,040 - 42,917,474 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X61,079,670 - 61,131,155 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX40,277,508 - 40,329,013 (+)NCBICelera
Cytogenetic MapXq21NCBI
Ptchd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555093,715,771 - 3,767,541 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555093,716,086 - 3,767,541 (+)NCBIChiLan1.0ChiLan1.0
PTCHD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X25,131,355 - 25,192,568 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X25,134,743 - 25,195,957 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X15,929,619 - 15,991,194 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X23,305,555 - 23,366,273 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX23,305,555 - 23,366,273 (+)Ensemblpanpan1.1panPan2
PTCHD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X19,096,787 - 19,153,367 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX19,096,559 - 19,148,528 (+)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0X19,050,277 - 19,105,259 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX19,049,225 - 19,101,569 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X19,089,857 - 19,144,818 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X19,119,773 - 19,174,752 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X19,176,247 - 19,231,008 (+)NCBIUU_Cfam_GSD_1.0
Ptchd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X12,031,839 - 12,087,657 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366241,072,857 - 1,125,994 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366241,072,857 - 1,125,962 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTCHD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X21,810,530 - 21,874,109 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX21,810,956 - 21,870,417 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605623,674,097 - 23,736,621 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ptchd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248298,458,628 - 8,512,511 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248298,458,430 - 8,513,011 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in PTCHD1
426 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system nervous system reproductive system
High
Medium 2 2
Low 2 1 3 3 21 1
Below cutoff 3 1 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000037376   ⟹   ENSSSCP00000037209
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX19,507,739 - 19,561,828 (+)Ensembl
RefSeq Acc Id: XM_021080574   ⟹   XP_020936233
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1X19,508,501 - 19,563,298 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020936233   ⟸   XM_021080574
- UniProtKB: A0A286ZZZ3 (UniProtKB/TrEMBL),   A0A4X1VF44 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000037209   ⟸   ENSSSCT00000037376
Protein Domains
SSD


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000032433 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015042632 UniProtKB/TrEMBL
  ENSSSCG00025030150 UniProtKB/TrEMBL
  ENSSSCG00030009182 UniProtKB/TrEMBL
  ENSSSCG00035075561 UniProtKB/TrEMBL
  ENSSSCG00040071011 UniProtKB/TrEMBL
  ENSSSCG00045018934 UniProtKB/TrEMBL
  ENSSSCG00050040527 UniProtKB/TrEMBL
  ENSSSCG00055007820 UniProtKB/TrEMBL
  ENSSSCG00060022452 UniProtKB/TrEMBL
  ENSSSCG00065019583 UniProtKB/TrEMBL
  ENSSSCG00070023405 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000037376 ENTREZGENE
  ENSSSCT00000037376.3 UniProtKB/TrEMBL
  ENSSSCT00015056806.1 UniProtKB/TrEMBL
  ENSSSCT00025040991.1 UniProtKB/TrEMBL
  ENSSSCT00030012547.1 UniProtKB/TrEMBL
  ENSSSCT00035102697.1 UniProtKB/TrEMBL
  ENSSSCT00040097541.1 UniProtKB/TrEMBL
  ENSSSCT00045032206.1 UniProtKB/TrEMBL
  ENSSSCT00050054828.1 UniProtKB/TrEMBL
  ENSSSCT00055015259.1 UniProtKB/TrEMBL
  ENSSSCT00060030470.1 UniProtKB/TrEMBL
  ENSSSCT00065026094.1 UniProtKB/TrEMBL
  ENSSSCT00070046658.1 UniProtKB/TrEMBL
Gene3D-CATH Multidrug efflux transporter AcrB transmembrane domain UniProtKB/TrEMBL
InterPro Ptc/Disp UniProtKB/TrEMBL
  SSD UniProtKB/TrEMBL
NCBI Gene PTCHD1 ENTREZGENE
PANTHER PATCHED DOMAIN-CONTAINING PROTEIN 1 UniProtKB/TrEMBL
  PATCHED-RELATED UniProtKB/TrEMBL
Pfam Patched UniProtKB/TrEMBL
PROSITE SSD UniProtKB/TrEMBL
Superfamily-SCOP Multidrug efflux transporter AcrB transmembrane domain UniProtKB/TrEMBL
UniProt A0A286ZZZ3 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1VF44 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:91942 ENTREZGENE