Trpc1 (transient receptor potential cation channel, subfamily C, member 1) - Rat Genome Database

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Gene: Trpc1 (transient receptor potential cation channel, subfamily C, member 1) Rattus norvegicus
Analyze
Symbol: Trpc1
Name: transient receptor potential cation channel, subfamily C, member 1
RGD ID: 619783
Description: Predicted to have several functions, including ATPase binding activity; inositol 1,4,5 trisphosphate binding activity; and ion channel binding activity. Involved in cellular response to hypoxia. Predicted to localize to several cellular components, including basolateral plasma membrane; membrane raft; and myofibril. Biomarker of type 2 diabetes mellitus. Orthologous to human TRPC1 (transient receptor potential cation channel subfamily C member 1); PARTICIPATES IN calcium/calcium-mediated signaling pathway; glutamate signaling pathway; INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC100909709; short transient receptor potential channel 1; short transient receptor potential channel 1-like; transient receptor protein 1; TRP-1; Trrp1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2896,263,322 - 96,314,197 (-)NCBI
Rnor_6.0 Ensembl8103,503,985 - 103,554,468 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.08103,503,982 - 103,554,905 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08102,955,430 - 103,005,377 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.08102,953,764 - 102,954,177 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48100,770,833 - 100,821,420NCBIRGSC3.4rn4RGSC3.4
Celera895,710,876 - 95,759,508 (-)NCBICelera
Cytogenetic Map8q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:8126111   PMID:10097141   PMID:10199829   PMID:11301024   PMID:14505576   PMID:15044151   PMID:15199065   PMID:15297455   PMID:15758179   PMID:15856275   PMID:16282360   PMID:16551274  
PMID:16930403   PMID:17174323   PMID:17224452   PMID:17389736   PMID:17416589   PMID:17956991   PMID:18068335   PMID:18261457   PMID:18268005   PMID:18322138   PMID:18338793   PMID:18711860  
PMID:18995841   PMID:19052258   PMID:19168436   PMID:19386284   PMID:19715666   PMID:20005206   PMID:20093626   PMID:20426773   PMID:20431989   PMID:20631248   PMID:21361857   PMID:22073358  
PMID:22157757   PMID:22201561   PMID:22534489   PMID:22547346   PMID:23169006   PMID:23382219   PMID:23526217   PMID:23526219   PMID:23542055   PMID:23764169   PMID:23922735   PMID:24107839  
PMID:24336649   PMID:24631674   PMID:25114176   PMID:25203114   PMID:25461595   PMID:25627107   PMID:25649357   PMID:25740156   PMID:25939574   PMID:26155749   PMID:26494622   PMID:27129253  
PMID:27641617   PMID:28478801   PMID:28627661   PMID:28697491   PMID:29634917   PMID:31878108   PMID:31982426   PMID:31996247  


Genomics

Comparative Map Data
Trpc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2896,263,322 - 96,314,197 (-)NCBI
Rnor_6.0 Ensembl8103,503,985 - 103,554,468 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.08103,503,982 - 103,554,905 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08102,955,430 - 103,005,377 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.08102,953,764 - 102,954,177 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48100,770,833 - 100,821,420NCBIRGSC3.4rn4RGSC3.4
Celera895,710,876 - 95,759,508 (-)NCBICelera
Cytogenetic Map8q31NCBI
TRPC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3142,724,034 - 142,807,888 (+)EnsemblGRCh38hg38GRCh38
GRCh383142,724,034 - 142,807,888 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh373142,442,876 - 142,526,730 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363143,925,956 - 144,009,420 (+)NCBINCBI36hg18NCBI36
Build 343143,925,963 - 144,009,427NCBI
Celera3140,866,763 - 140,950,233 (+)NCBI
Cytogenetic Map3q23NCBI
HuRef3139,815,981 - 139,899,449 (+)NCBIHuRef
CHM1_13142,406,259 - 142,489,727 (+)NCBICHM1_1
Trpc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39995,587,125 - 95,632,438 (-)NCBIGRCm39mm39
GRCm39 Ensembl995,587,135 - 95,632,428 (-)Ensembl
GRCm38995,705,072 - 95,750,386 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl995,705,082 - 95,750,375 (-)EnsemblGRCm38mm10GRCm38
MGSCv37995,607,046 - 95,650,777 (-)NCBIGRCm37mm9NCBIm37
MGSCv36995,515,979 - 95,559,710 (-)NCBImm8
Celera995,273,759 - 95,317,486 (-)NCBICelera
Cytogenetic Map9E3.3NCBI
cM Map950.2NCBI
Trpc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555083,143,868 - 3,211,613 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555083,143,868 - 3,211,613 (-)NCBIChiLan1.0ChiLan1.0
TRPC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13147,348,776 - 147,432,332 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3147,349,056 - 147,432,332 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03139,757,408 - 139,841,006 (+)NCBIMhudiblu_PPA_v0panPan3
TRPC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12338,350,066 - 38,416,086 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2338,350,278 - 38,414,464 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2338,276,236 - 38,342,159 (+)NCBI
ROS_Cfam_1.02338,882,222 - 38,948,154 (+)NCBI
UMICH_Zoey_3.12338,564,280 - 38,643,474 (+)NCBI
UNSW_CanFamBas_1.02338,640,845 - 38,706,480 (+)NCBI
UU_Cfam_GSD_1.02338,884,935 - 38,950,859 (+)NCBI
Trpc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560277,600,930 - 77,678,903 (+)NCBI
SpeTri2.0NW_0049365404,340,672 - 4,417,655 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRPC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1383,436,395 - 83,498,422 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11383,436,343 - 83,498,419 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21391,200,922 - 91,271,298 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TRPC1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11547,827,295 - 47,909,207 (-)NCBI
ChlSab1.1 Ensembl1547,827,247 - 47,909,202 (-)Ensembl
Vero_WHO_p1.0NW_02366604120,761,507 - 20,843,909 (-)NCBI
Trpc1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473019,307,346 - 19,375,537 (+)NCBI

Position Markers
RH134083  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera895,710,939 - 95,711,135UniSTS
RH 3.4 Map81051.8UniSTS
Cytogenetic Map8q31UniSTS
RH144273  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2896,264,527 - 96,264,709 (+)MAPPER
Rnor_6.08103,505,187 - 103,505,368NCBIRnor6.0
Rnor_5.08102,956,183 - 102,956,364UniSTSRnor5.0
RGSC_v3.48100,771,586 - 100,771,767UniSTSRGSC3.4
Celera895,712,080 - 95,712,261UniSTS
RH 3.4 Map81053.4UniSTS
Cytogenetic Map8q31UniSTS
UniSTS:236220  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2896,264,695 - 96,264,914 (+)MAPPER
Rnor_6.08103,505,355 - 103,505,573NCBIRnor6.0
Rnor_5.08102,956,351 - 102,956,569UniSTSRnor5.0
RGSC_v3.48100,771,754 - 100,771,972UniSTSRGSC3.4
Celera895,712,248 - 95,712,466UniSTS
Cytogenetic Map8q31UniSTS
Trpc1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2896,265,043 - 96,265,153 (+)MAPPER
Rnor_6.08103,505,703 - 103,505,812NCBIRnor6.0
Rnor_5.08102,956,699 - 102,956,808UniSTSRnor5.0
Celera895,712,596 - 95,712,705UniSTS
Cytogenetic Map8q31UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)89531047119211942Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810938911120496129Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)829867983106526740Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)829867983106526740Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)829867983106526740Rat
8662823Vetf5Vascular elastic tissue fragility QTL 51.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)830918112107206309Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)833558660109028082Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)833558660109028082Rat
1578755Pur5Proteinuria QTL 53.30.0001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)833558660109028082Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)833558764113580387Rat
1331838Niddm61Non-insulin dependent diabetes mellitus QTL 613.530.0004blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)839230130106506973Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)844458129118087517Rat
12879882Am8Aortic mass QTL 80.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)847200750106394378Rat
12879878Bw183Body weight QTL 1830.001body mass (VT:0001259)body weight (CMO:0000012)847200750106394378Rat
12879879Cm99Cardiac mass QTL 990.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)847200750106394378Rat
12879880Cm100Cardiac mass QTL 1000.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)847200750106394378Rat
12879881Cm101Cardiac mass QTL 1010.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)847200750106394378Rat
12879883Kidm65Kidney mass QTL 650.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)847200750106394378Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)850529480128036471Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)850529480128036471Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)850529480128036471Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)850529480128036471Rat
1331837Bw23Body weight QTL 234.190.00007body mass (VT:0001259)body weight (CMO:0000012)850529563106506973Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)855435004115812386Rat
2293697Bmd39Bone mineral density QTL 39femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)858230766106394378Rat
631664Hcar3Hepatocarcinoma resistance QTL 32.90.0005liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)858425510106526740Rat
1300177Cm2Cardiac mass QTL 23.65heart mass (VT:0007028)heart weight (CMO:0000017)859234112108068306Rat
2301402Bp316Blood pressure QTL 3160.005arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)861394378106394378Rat
10402857Bp380Blood pressure QTL 3800.95arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)861394378106394378Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)865717449128033050Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)872849686117849686Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight as a percentage of body weight (CMO:0000654)874917593121080545Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)876103982127182642Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)878805083123805083Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)878805083123805083Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)878805083123805083Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)878805083123805083Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)880697934125697934Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)883894304128894304Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)889058229132243842Rat
8693654Alc32Alcohol consumption QTL 3220.755drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)895319530115625029Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)895963141122354314Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8100873811133307652Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8100873811133307652Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)8102051964133307652Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:350
Count of miRNA genes:219
Interacting mature miRNAs:244
Transcripts:ENSRNOT00000013144
Prediction methods:Microtar, Miranda
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.


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 39 6 3
Low 3 43 32 16 19 16 8 11 35 35 35 8 8
Below cutoff 25 25 25

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053558 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766568 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766569 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766570 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766571 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595949 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082217 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082218 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082220 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF061266 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF061873 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ839447 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000199 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000079965   ⟹   ENSRNOP00000072139
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl8103,503,985 - 103,554,399 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000089833   ⟹   ENSRNOP00000074229
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl8103,503,988 - 103,554,468 (-)Ensembl
RefSeq Acc Id: NM_053558   ⟹   NP_446010
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2896,263,324 - 96,313,725 (-)NCBI
Rnor_6.08103,503,982 - 103,554,381 (-)NCBI
Rnor_5.08102,953,764 - 102,954,177 (-)NCBI
Rnor_5.08102,955,430 - 103,005,377 (-)NCBI
RGSC_v3.48100,770,833 - 100,821,420 (-)RGD
Celera895,710,876 - 95,759,508 (-)RGD
Sequence:
RefSeq Acc Id: XM_008766568   ⟹   XP_008764790
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2896,263,322 - 96,314,197 (-)NCBI
Rnor_6.08103,505,159 - 103,554,905 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008766569   ⟹   XP_008764791
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08103,505,159 - 103,554,311 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008766570   ⟹   XP_008764792
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08103,505,159 - 103,540,334 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008766571   ⟹   XP_008764793
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08103,505,159 - 103,554,311 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017595949   ⟹   XP_017451438
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08103,505,159 - 103,548,695 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017595950   ⟹   XP_017451439
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08103,505,159 - 103,554,311 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039082217   ⟹   XP_038938145
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2896,263,322 - 96,308,022 (-)NCBI
RefSeq Acc Id: XM_039082218   ⟹   XP_038938146
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2896,263,322 - 96,313,705 (-)NCBI
RefSeq Acc Id: XM_039082219   ⟹   XP_038938147
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2896,263,322 - 96,300,720 (-)NCBI
RefSeq Acc Id: XM_039082220   ⟹   XP_038938148
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2896,263,322 - 96,313,705 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_446010   ⟸   NM_053558
- Sequence:
RefSeq Acc Id: XP_008764790   ⟸   XM_008766568
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K7J3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008764793   ⟸   XM_008766571
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_008764791   ⟸   XM_008766569
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008764792   ⟸   XM_008766570
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017451439   ⟸   XM_017595950
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017451438   ⟸   XM_017595949
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000072139   ⟸   ENSRNOT00000079965
RefSeq Acc Id: ENSRNOP00000074229   ⟸   ENSRNOT00000089833
RefSeq Acc Id: XP_038938148   ⟸   XM_039082220
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038938146   ⟸   XM_039082218
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038938145   ⟸   XM_039082217
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038938147   ⟸   XM_039082219
- Peptide Label: isoform X4
Protein Domains
Ion_trans   TRP_2

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619783 AgrOrtholog
Ensembl Genes ENSRNOG00000054902 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000072139 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000074229 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000079965 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000089833 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Ankyrin_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ankyrin_rpt-contain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ion_trans_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRP_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRPC1_channel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRPC_channel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:89821 UniProtKB/Swiss-Prot
NCBI Gene 89821 ENTREZGENE
PANTHER PTHR10117 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10117:SF56 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Ion_trans UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRP_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Trpc1 PhenoGen
PRINTS TRNSRECEPTRP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRPCHANNEL1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ANK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48403 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K7J3 ENTREZGENE, UniProtKB/TrEMBL
  F1LRB9_RAT UniProtKB/TrEMBL
  Q9QX01 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Trpc1  transient receptor potential cation channel, subfamily C, member 1  LOC100909709  short transient receptor potential channel 1-like  Data Merged 737654 PROVISIONAL
2012-07-05 LOC100909709  short transient receptor potential channel 1-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 Trpc1  transient receptor potential cation channel, subfamily C, member 1  Trrp1  transient receptor protein 1  Symbol and Name updated 1299863 APPROVED
2002-08-07 Trrp1  transient receptor protein 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localizes to caveolae 1304442