Tpcn1 (two pore segment channel 1) - Rat Genome Database

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Gene: Tpcn1 (two pore segment channel 1) Rattus norvegicus
Analyze
Symbol: Tpcn1
Name: two pore segment channel 1
RGD ID: 708494
Description: Predicted to enable several functions, including monoatomic cation channel activity; phosphatidylinositol-3,5-bisphosphate binding activity; and protein homodimerization activity. Predicted to be involved in endocytosis involved in viral entry into host cell; positive regulation of autophagy; and sodium ion transmembrane transport. Predicted to be located in early endosome membrane; endolysosome; and recycling endosome membrane. Predicted to be active in endosome membrane and lysosomal membrane. Orthologous to human TPCN1 (two pore segment channel 1); PARTICIPATES IN calcium transport pathway; calcium/calcium-mediated signaling pathway; INTERACTS WITH (+)-schisandrin B; 6-propyl-2-thiouracil; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC246215; two pore calcium channel protein 1; two pore channel 1; voltage-dependent calcium channel protein TPC1; voltage-gated Ca channel
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21235,972,813 - 36,029,632 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1235,972,846 - 36,029,626 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1237,152,476 - 37,208,823 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01237,763,694 - 37,820,042 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01236,816,157 - 36,872,506 (+)NCBIRnor_WKY
Rnor_6.01241,507,784 - 41,566,847 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1241,543,696 - 41,566,847 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01243,365,885 - 43,421,373 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41237,140,428 - 37,227,711 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11237,003,822 - 37,091,098 (+)NCBI
Celera1237,634,250 - 37,689,810 (+)NCBICelera
Cytogenetic Map12q16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-hydroxypropanoic acid  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
C60 fullerene  (EXP)
cadmium dichloride  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chloroacetaldehyde  (ISO)
cidofovir anhydrous  (ISO)
cisplatin  (ISO)
clodronic acid  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dioxygen  (ISO)
entinostat  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fenthion  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
genistein  (ISO)
indometacin  (ISO)
kojic acid  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (EXP,ISO)
metformin  (EXP)
methapyrilene  (ISO)
methidathion  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
N,N-diethyl-m-toluamide  (EXP)
nefazodone  (EXP)
nickel atom  (ISO)
ozone  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
permethrin  (EXP)
pirinixic acid  (ISO)
potassium chromate  (ISO)
rac-lactic acid  (ISO)
rotenone  (ISO)
silicon dioxide  (ISO)
sunitinib  (ISO)
tetrachloromethane  (EXP)
thimerosal  (ISO)
titanium dioxide  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
urethane  (ISO)
vorinostat  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
early endosome membrane  (IEA,ISO,ISS)
endolysosome  (IEA,ISO,ISS)
endosome membrane  (IBA,ISO,ISS)
lysosomal membrane  (IBA,IEA,ISO,ISS)
membrane  (ISO)
recycling endosome membrane  (IEA,ISO,ISS)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Molecular cloning of a novel form (two-repeat) protein related to voltage-gated sodium and calcium channels. Ishibashi K, etal., Biochem Biophys Res Commun 2000 Apr 13;270(2):370-6.
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
7. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
8. Calcium signaling via two-pore channels: local or global, that is the question. Zhu MX, etal., Am J Physiol Cell Physiol. 2010 Mar;298(3):C430-41. doi: 10.1152/ajpcell.00475.2009. Epub 2009 Dec 16.
Additional References at PubMed
PMID:15489334   PMID:16627563   PMID:19620632   PMID:21903581   PMID:22012985   PMID:29562233   PMID:31557916   PMID:34263977  


Genomics

Comparative Map Data
Tpcn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21235,972,813 - 36,029,632 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1235,972,846 - 36,029,626 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1237,152,476 - 37,208,823 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01237,763,694 - 37,820,042 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01236,816,157 - 36,872,506 (+)NCBIRnor_WKY
Rnor_6.01241,507,784 - 41,566,847 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1241,543,696 - 41,566,847 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01243,365,885 - 43,421,373 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41237,140,428 - 37,227,711 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11237,003,822 - 37,091,098 (+)NCBI
Celera1237,634,250 - 37,689,810 (+)NCBICelera
Cytogenetic Map12q16NCBI
TPCN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812113,221,464 - 113,298,585 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl12113,221,050 - 113,298,585 (+)EnsemblGRCh38hg38GRCh38
GRCh3712113,659,269 - 113,736,390 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3612112,143,652 - 112,218,317 (+)NCBINCBI36Build 36hg18NCBI36
Build 3412112,121,988 - 112,196,653NCBI
Celera12113,286,083 - 113,363,215 (+)NCBICelera
Cytogenetic Map12q24.13NCBI
HuRef12110,671,978 - 110,748,859 (+)NCBIHuRef
CHM1_112113,627,519 - 113,704,638 (+)NCBICHM1_1
T2T-CHM13v2.012113,198,077 - 113,275,213 (+)NCBIT2T-CHM13v2.0
Tpcn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395120,672,222 - 120,726,731 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5120,672,218 - 120,726,738 (-)EnsemblGRCm39 Ensembl
GRCm385120,534,157 - 120,588,678 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5120,534,153 - 120,588,673 (-)EnsemblGRCm38mm10GRCm38
MGSCv375120,984,166 - 121,038,622 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365120,794,774 - 120,849,230 (-)NCBIMGSCv36mm8
Celera5117,618,746 - 117,673,755 (-)NCBICelera
Cytogenetic Map5FNCBI
Tpcn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554829,542,079 - 9,592,972 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554829,538,572 - 9,594,739 (+)NCBIChiLan1.0ChiLan1.0
TPCN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan112121,292,962 - 121,383,532 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v012110,812,587 - 110,903,033 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.112114,209,638 - 114,286,443 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl12114,209,638 - 114,286,443 (+)Ensemblpanpan1.1panPan2
TPCN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12610,599,898 - 10,662,269 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2610,599,780 - 10,660,767 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2610,722,333 - 10,784,680 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02610,844,354 - 10,906,738 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2610,844,324 - 10,906,732 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12610,818,283 - 10,880,655 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02610,880,824 - 10,943,296 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02610,930,100 - 10,992,447 (+)NCBIUU_Cfam_GSD_1.0
Tpcn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118148,612,146 - 148,663,274 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366683,111,002 - 3,163,396 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049366683,111,038 - 3,162,163 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TPCN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1438,683,597 - 38,773,186 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11438,698,680 - 38,773,189 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21441,288,818 - 41,314,324 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TPCN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.111108,459,754 - 108,549,933 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl11108,475,380 - 108,552,374 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037136,539,692 - 136,615,663 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tpcn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474719,179,575 - 19,236,206 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474719,179,378 - 19,237,799 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tpcn1
414 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:273
Count of miRNA genes:178
Interacting mature miRNAs:220
Transcripts:ENSRNOT00000001866
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)12142110980Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)12142110980Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12142450532Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12144465750Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12144503507Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12144503507Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12117200546172005Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6556449546669029Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449846669029Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12610757946669029Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12719673046669029Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)12960327746669029Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121047413746669029Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121047413746669029Rat
1331761Bp218Blood pressure QTL 2182.973arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121107382545055165Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121235161946669029Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121281238546669029Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121281238546669029Rat
1549902Bp269Blood pressure QTL 269arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121318273646669029Rat
1549912Bp268Blood pressure QTL 268arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)101318273646669029Rat
2302060Pia37Pristane induced arthritis QTL 376.10.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)121319815746669029Rat
631543Bp83Blood pressure QTL 835.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121555082638478808Rat
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)121914436246669029Rat
737822Alc10Alcohol consumption QTL 102.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)121961087040218516Rat
5684888Pia42Pristane induced arthritis QTL 42joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121961087042828880Rat
61324Eae5Experimental allergic encephalomyelitis QTL 514nervous system integrity trait (VT:0010566)percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)121961087046669029Rat
70213Niddm27Non-insulin dependent diabetes mellitus QTL 273.72blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121983578938193007Rat
7411643Foco20Food consumption QTL 200.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)122032881946669029Rat
70169Eae13Experimental allergic encephalomyelitis QTL 130.032nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)122413920236638073Rat
1556747Calcic1Intracellular calcium level QTL 13.6platelet calcium amount (VT:0010500)platelet intracellular calcium level (CMO:0000922)122806443340130419Rat
1300175Cm5Cardiac mass QTL 53.78heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)122806443345899022Rat
1600386Calcic2Intracellular calcium level QTL 20.001platelet physiology trait (VT:0005464)platelet intracellular calcium level (CMO:0000922)122806443346669029Rat
1331787Rf41Renal function QTL 412.998kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)122806455740218380Rat
631829Alc6Alcohol consumption QTL 64.7consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)122860752637691617Rat
1300162Bp188Blood pressure QTL 1883.19arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)123210317445899022Rat

Markers in Region
D12Got83  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21235,998,884 - 35,999,103 (+)MAPPERmRatBN7.2
Rnor_6.01241,532,976 - 41,533,193NCBIRnor6.0
Celera1237,659,135 - 37,659,328UniSTS
RH 3.4 Map12641.4RGD
RH 3.4 Map12641.4UniSTS
RH 2.0 Map12477.1RGD
Cytogenetic Map12q16UniSTS
RH130280  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21236,029,809 - 36,029,992 (+)MAPPERmRatBN7.2
Rnor_6.01241,567,031 - 41,567,213NCBIRnor6.0
Rnor_5.01243,421,557 - 43,421,739UniSTSRnor5.0
RGSC_v3.41237,227,895 - 37,228,077UniSTSRGSC3.4
Celera1237,689,994 - 37,690,176UniSTS
RH 3.4 Map12646.1UniSTS
Cytogenetic Map12q16UniSTS
RH131571  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21236,029,358 - 36,029,551 (+)MAPPERmRatBN7.2
Rnor_6.01241,566,580 - 41,566,772NCBIRnor6.0
Rnor_5.01243,421,106 - 43,421,298UniSTSRnor5.0
RGSC_v3.41237,227,444 - 37,227,636UniSTSRGSC3.4
Celera1237,689,543 - 37,689,735UniSTS
RH 3.4 Map12646.8UniSTS
Cytogenetic Map12q16UniSTS


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 42 57 41 19 41 8 11 74 35 36 11 8
Low 1 5
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000079639   ⟹   ENSRNOP00000074914
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1235,972,846 - 36,029,626 (+)Ensembl
Rnor_6.0 Ensembl1241,543,696 - 41,564,819 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000083890   ⟹   ENSRNOP00000072420
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1235,972,846 - 36,029,626 (+)Ensembl
Rnor_6.0 Ensembl1241,544,411 - 41,566,847 (+)Ensembl
RefSeq Acc Id: NM_139332   ⟹   NP_647548
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21235,972,853 - 36,029,626 (+)NCBI
Rnor_6.01241,507,784 - 41,566,847 (+)NCBI
Rnor_5.01243,365,885 - 43,421,373 (+)NCBI
RGSC_v3.41237,140,428 - 37,227,711 (+)RGD
Celera1237,634,250 - 37,689,810 (+)RGD
Sequence:
RefSeq Acc Id: XM_039089064   ⟹   XP_038944992
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21235,972,823 - 36,029,632 (+)NCBI
RefSeq Acc Id: XM_039089065   ⟹   XP_038944993
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21235,972,813 - 36,029,632 (+)NCBI
RefSeq Acc Id: XM_039089066   ⟹   XP_038944994
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21235,980,106 - 36,029,632 (+)NCBI
RefSeq Acc Id: XM_039089067   ⟹   XP_038944995
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21235,972,813 - 36,022,307 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_647548   ⟸   NM_139332
- UniProtKB: Q9WTN5 (UniProtKB/Swiss-Prot),   A0A0G2K2X9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074914   ⟸   ENSRNOT00000079639
RefSeq Acc Id: ENSRNOP00000072420   ⟸   ENSRNOT00000083890
RefSeq Acc Id: XP_038944993   ⟸   XM_039089065
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038944995   ⟸   XM_039089067
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038944992   ⟸   XM_039089064
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K2X9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944994   ⟸   XM_039089066
- Peptide Label: isoform X3
Protein Domains
Ion transport

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9WTN5-F1-model_v2 AlphaFold Q9WTN5 1-817 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:708494 AgrOrtholog
BioCyc Gene G2FUF-19178 BioCyc
Ensembl Genes ENSRNOG00000059344 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000072420 ENTREZGENE
  ENSRNOP00000072420.2 UniProtKB/TrEMBL
  ENSRNOP00000074914.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000079639.2 UniProtKB/TrEMBL
  ENSRNOT00000083890 ENTREZGENE
  ENSRNOT00000083890.2 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.70 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.20.120.350 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5599545 IMAGE-MGC_LOAD
InterPro Ion_trans_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TPC1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Volt_channel_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:246215 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:72293 IMAGE-MGC_LOAD
NCBI Gene 246215 ENTREZGENE
PANTHER PTHR46474 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TWO PORE CALCIUM CHANNEL PROTEIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Ion_trans UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tpcn1 PhenoGen
Superfamily-SCOP Voltage-gated potassium channels UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K2X9 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K997_RAT UniProtKB/TrEMBL
  Q9WTN5 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q6P6R1 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-12-15 Tpcn1  two pore segment channel 1  Tpcn1  two pore channel 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 Tpcn1  two pore channel 1  LOC246215  voltage-gated Ca channel  Symbol and Name updated 1299863 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to the apical membrane of inner medullary collecting ducts in kidney 724765