Trpc4 (transient receptor potential cation channel, subfamily C, member 4) - Rat Genome Database

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Gene: Trpc4 (transient receptor potential cation channel, subfamily C, member 4) Rattus norvegicus
Analyze
Symbol: Trpc4
Name: transient receptor potential cation channel, subfamily C, member 4
RGD ID: 621276
Description: Enables calcium channel activity. Involved in calcium ion transport; positive regulation of store-operated calcium entry; and regulation of action potential firing rate. Predicted to be located in several cellular components, including basolateral plasma membrane; caveola; and cortical cytoskeleton. Predicted to be part of calcium channel complex. Predicted to colocalize with cell-cell junction. Human ortholog(s) of this gene implicated in lung cancer. Orthologous to human TRPC4 (transient receptor potential cation channel subfamily C member 4); INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: capacitative calcium entry channel 1; CCE1; short transient receptor potential channel 4; transient receptor potential 4; transient receptor potential channel 4; transient receptor potential protein 4; transient receptor protein 4; Trp4; Trrp4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Trpc4_v1   Trpc4_v2   Trpc4Tn(sb-T2/Bart3)2.192Mcwi   Trpc4Tn(sb)Tngen  
Genetic Models: F344-Trpc4Tn(sb-T2/Bart3)2.192Mcwi F344-Trpc4Tn(sb)1Bni
Candidate Gene For: Cm49
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22138,307,676 - 138,476,856 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2138,308,084 - 138,476,768 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2144,918,944 - 145,044,642 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02143,030,992 - 143,156,703 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02137,662,818 - 137,788,527 (+)NCBIRnor_WKY
Rnor_6.02143,433,102 - 143,605,757 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2143,475,323 - 143,604,972 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02163,115,873 - 163,282,223 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42143,350,286 - 143,485,716 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12143,254,891 - 143,435,776 (+)NCBI
Celera2132,835,300 - 132,958,908 (+)NCBICelera
Cytogenetic Map2q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. TRPC4 inactivation confers a survival benefit in severe pulmonary arterial hypertension. Alzoubi A, etal., Am J Pathol. 2013 Dec;183(6):1779-1788. doi: 10.1016/j.ajpath.2013.08.016. Epub 2013 Oct 8.
2. Cloning and expression localization of cDNA for rat homolog of TRP protein, a possible store-operated calcium (Ca2+) channel. Funayama M, etal., Brain Res Mol Brain Res 1996 Dec 31;43(1-2):259-66.
3. 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.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Loss of the trpc4 gene is associated with a reduction in cocaine self-administration and reduced spontaneous ventral tegmental area dopamine neuronal activity, without deficits in learning for natural rewards. Klipec WD, etal., Behav Brain Res. 2016 Jun 1;306:117-27. doi: 10.1016/j.bbr.2016.03.027. Epub 2016 Mar 14.
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. Cocaine self-administration in rats lacking a functional trpc4 gene. Rasmus KC, etal., F1000Res. 2013 Apr 17;2:110. doi: 10.12688/f1000research.2-110.v1. eCollection 2013.
9. GOA pipeline RGD automated data pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. Cloning and functional expression of a novel splice variant of rat TRPC4. Satoh E, etal., Circ J 2002 Oct;66(10):954-8.
13. Functional differences between TRPC4 splice variants. Schaefer M, etal., J Biol Chem 2002 Feb 1;277(5):3752-9.
14. Association of mammalian trp4 and phospholipase C isozymes with a PDZ domain-containing protein, NHERF. Tang Y, etal., J Biol Chem 2000 Dec 1;275(48):37559-64.
15. A rat knockout model implicates TRPC4 in visceral pain sensation. Westlund KN, etal., Neuroscience. 2014 Mar 14;262:165-75. doi: 10.1016/j.neuroscience.2013.12.043. Epub 2014 Jan 3.
16. Identification of TRPCs genetic variants that modify risk for lung cancer based on the pathway and two-stage study. Zhang Z, etal., Meta Gene. 2016 Jul 8;9:191-6. doi: 10.1016/j.mgene.2016.07.005. eCollection 2016 Sep.
Additional References at PubMed
PMID:10998353   PMID:11301024   PMID:11897792   PMID:14505576   PMID:14668438   PMID:15044151   PMID:15199065   PMID:16254212   PMID:17141310   PMID:17416589   PMID:17593972   PMID:17928298  
PMID:18261457   PMID:18538797   PMID:19139271   PMID:19996314   PMID:20164195   PMID:20662729   PMID:22534489   PMID:22611033   PMID:23526217   PMID:23677990   PMID:23922735   PMID:24352411  
PMID:25049082   PMID:27083517   PMID:27129253   PMID:27641617   PMID:28697491   PMID:29634917   PMID:31904090   PMID:31996247  


Genomics

Comparative Map Data
Trpc4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22138,307,676 - 138,476,856 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2138,308,084 - 138,476,768 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2144,918,944 - 145,044,642 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02143,030,992 - 143,156,703 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02137,662,818 - 137,788,527 (+)NCBIRnor_WKY
Rnor_6.02143,433,102 - 143,605,757 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2143,475,323 - 143,604,972 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02163,115,873 - 163,282,223 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42143,350,286 - 143,485,716 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12143,254,891 - 143,435,776 (+)NCBI
Celera2132,835,300 - 132,958,908 (+)NCBICelera
Cytogenetic Map2q26NCBI
TRPC4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381337,632,063 - 37,869,772 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1337,632,063 - 37,869,802 (-)EnsemblGRCh38hg38GRCh38
GRCh371338,206,200 - 38,443,909 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361337,108,795 - 37,341,935 (-)NCBINCBI36Build 36hg18NCBI36
Build 341337,108,794 - 37,341,935NCBI
Celera1319,264,388 - 19,497,682 (-)NCBICelera
Cytogenetic Map13q13.3NCBI
HuRef1319,010,251 - 19,243,495 (-)NCBIHuRef
CHM1_11338,178,367 - 38,411,614 (-)NCBICHM1_1
T2T-CHM13v2.01336,851,454 - 37,089,250 (-)NCBIT2T-CHM13v2.0
Trpc4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39354,063,441 - 54,225,892 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl354,063,456 - 54,225,892 (+)EnsemblGRCm39 Ensembl
GRCm38354,155,584 - 54,318,471 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl354,156,035 - 54,318,471 (+)EnsemblGRCm38mm10GRCm38
MGSCv37353,960,026 - 54,122,389 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36354,244,033 - 54,406,396 (+)NCBIMGSCv36mm8
Celera353,878,360 - 54,040,521 (+)NCBICelera
Cytogenetic Map3CNCBI
cM Map325.43NCBI
Trpc4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554318,282,812 - 8,479,944 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554318,283,585 - 8,479,524 (+)NCBIChiLan1.0ChiLan1.0
TRPC4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan11328,272,271 - 28,501,184 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01318,852,991 - 19,081,790 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11337,445,015 - 37,673,783 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1337,445,015 - 37,592,115 (-)Ensemblpanpan1.1panPan2
TRPC4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1252,927,347 - 3,133,935 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl252,981,518 - 3,132,829 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha253,022,599 - 3,229,148 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0253,025,824 - 3,232,420 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl253,025,926 - 3,231,292 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1252,930,561 - 3,136,488 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0252,920,321 - 3,126,347 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0252,990,669 - 3,197,659 (+)NCBIUU_Cfam_GSD_1.0
Trpc4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945164,042,735 - 164,240,721 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647231,711,040 - 31,843,876 (-)EnsemblSpeTri2.0
SpeTri2.0NW_00493647231,710,873 - 31,909,106 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRPC4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1113,298,992 - 13,517,502 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11113,300,288 - 13,519,001 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21113,275,420 - 13,336,168 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Sscrofa10.21113,401,850 - 13,486,078 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TRPC4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1316,135,822 - 16,358,902 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605727,929,460 - 28,150,311 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trpc4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624920641,917 - 903,171 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624920641,931 - 903,229 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Trpc4
725 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:114
Count of miRNA genes:79
Interacting mature miRNAs:86
Transcripts:ENSRNOT00000015437, ENSRNOT00000044028
Prediction methods:Microtar, 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
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)225413423143657569Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
2293835Kiddil5Kidney dilation QTL 53.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607157142209Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607182042367Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243154682202446871Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
2293671Bss44Bone structure and strength QTL 4410.970.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)243162366148478373Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256043031202447032Rat
61438Cia7Collagen induced arthritis QTL 74.60.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)259324377141596857Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118275202447032Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1558653Prcr1Prostate cancer resistance QTL 15prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)272532993157142209Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)274786664206665859Rat
631198Cm22Cardiac mass QTL 224.30.0008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)276539322150540526Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)276539322202447032Rat
2299162Iddm32Insulin dependent diabetes mellitus QTL 322.36blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)278665616143657569Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
631566Bp90Blood pressure QTL 900.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2102803808147803808Rat
8662836Vetf8Vascular elastic tissue fragility QTL 80.66thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2104559726149559726Rat
1581552Pur12Proteinuria QTL 125.190.0009urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)2112103657148076632Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
1354594Despr10Despair related QTL 100.00000249locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)2114654253159654253Rat
1359035Bp276Blood pressure QTL 276arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2114837527143657569Rat
1359035Bp276Blood pressure QTL 276arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527143657569Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2114837527185876470Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527185876470Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
5135226Leukc2Leukocyte quantity QTL 2eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)2118111229149559726Rat
1582257Gluco21Glucose level QTL 213.10.0035blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2118111229157142209Rat
738007Anxrr7Anxiety related response QTL 74.4exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2118189491163189491Rat
1581578Cm49Cardiac mass QTL 494.90.01heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2127447387143657569Rat
1358360Sradr2Stress Responsive Adrenal Weight QTL 210.24adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)2129164097152195315Rat
6907363Bp357Blood pressure QTL 3574.10.002arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2129540907174540907Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2133914684202447032Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2135552573202446871Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2136445150202447032Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2136916935189599348Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2136916935213594495Rat
12879830Bw178Body weight QTL 1780.001body mass (VT:0001259)body weight (CMO:0000012)2137219876142323610Rat
12879831Cm82Cardiac mass QTL 820.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2137219876142323610Rat
12879832Cm83Cardiac mass QTL 830.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2137219876142323610Rat
12879833Cm84Cardiac mass QTL 840.001heart right ventricle mass (VT:0007033)heart weight to body weight ratio (CMO:0000074)2137219876142323610Rat
12879834Am1Aortic mass QTL 10.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2137219876142323610Rat
12879835Kidm60Kidney mass QTL 600.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2137219876142323610Rat
1549841Bp256Blood pressure QTL 2560.03arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2137219876142323610Rat

Markers in Region
RH134901  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22138,476,449 - 138,476,634 (+)MAPPERmRatBN7.2
Rnor_6.02143,604,778 - 143,604,962NCBIRnor6.0
Rnor_5.02163,281,870 - 163,282,054UniSTSRnor5.0
RGSC_v3.42143,485,522 - 143,485,706UniSTSRGSC3.4
Celera2132,958,714 - 132,958,898UniSTS
RH 3.4 Map2860.6UniSTS
Cytogenetic Map2q26UniSTS
Trpc4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22138,475,745 - 138,476,511 (+)MAPPERmRatBN7.2
Rnor_6.02143,604,074 - 143,604,839NCBIRnor6.0
Rnor_5.02163,281,166 - 163,281,931UniSTSRnor5.0
RGSC_v3.42143,484,818 - 143,485,583UniSTSRGSC3.4
Celera2132,958,010 - 132,958,775UniSTS
Cytogenetic Map2q26UniSTS
Trpc4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22138,476,205 - 138,476,314 (+)MAPPERmRatBN7.2
Rnor_6.02143,604,534 - 143,604,642NCBIRnor6.0
Rnor_5.02163,281,626 - 163,281,734UniSTSRnor5.0
Celera2132,958,470 - 132,958,578UniSTS
Cytogenetic Map2q26UniSTS


Genetic Models
This gene Trpc4 is modified in the following models/strains

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 27 3
Low 3 2 4 4 41 7 21 10 4
Below cutoff 37 21 7 14 7 4 7 6 28 16 1 4

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001083115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_080396 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006232356 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591143 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591144 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103271 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103272 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB008889 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC118066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF288407 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF288408 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF421363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF421364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF421365 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF421366 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF421367 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF421368 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228645 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000015437   ⟹   ENSRNOP00000015437
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2138,351,086 - 138,476,644 (+)Ensembl
Rnor_6.0 Ensembl2143,475,323 - 143,604,972 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000044028   ⟹   ENSRNOP00000042886
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2138,308,084 - 138,476,768 (+)Ensembl
Rnor_6.0 Ensembl2143,475,323 - 143,604,972 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000101369   ⟹   ENSRNOP00000094229
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2138,308,084 - 138,427,689 (+)Ensembl
RefSeq Acc Id: NM_001083115   ⟹   NP_001076584
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,351,086 - 138,476,644 (+)NCBI
Rnor_6.02143,475,323 - 143,604,972 (+)NCBI
Rnor_5.02163,115,873 - 163,282,223 (+)NCBI
RGSC_v3.42143,350,286 - 143,485,716 (+)RGD
Celera2132,835,300 - 132,958,908 (+)RGD
Sequence:
RefSeq Acc Id: NM_080396   ⟹   NP_536321
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,351,086 - 138,476,644 (+)NCBI
Rnor_6.02143,475,323 - 143,604,972 (+)NCBI
Rnor_5.02163,115,873 - 163,282,223 (+)NCBI
RGSC_v3.42143,350,286 - 143,485,716 (+)RGD
Celera2132,835,300 - 132,958,908 (+)RGD
Sequence:
RefSeq Acc Id: XM_006232356   ⟹   XP_006232418
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,307,679 - 138,476,856 (+)NCBI
Rnor_6.02143,433,104 - 143,605,757 (+)NCBI
Rnor_5.02163,115,873 - 163,282,223 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591143   ⟹   XP_017446632
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,307,677 - 138,476,856 (+)NCBI
Rnor_6.02143,433,115 - 143,605,757 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039103271   ⟹   XP_038959199
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,307,676 - 138,476,856 (+)NCBI
RefSeq Acc Id: XM_039103272   ⟹   XP_038959200
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,426,515 - 138,476,856 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_536321   ⟸   NM_080396
- Peptide Label: isoform alpha
- UniProtKB: Q91ZM1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001076584   ⟸   NM_001083115
- Peptide Label: isoform beta
- UniProtKB: Q91ZM0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006232418   ⟸   XM_006232356
- Peptide Label: isoform X1
- UniProtKB: Q91ZM1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017446632   ⟸   XM_017591143
- Peptide Label: isoform X2
- UniProtKB: Q91ZM0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000042886   ⟸   ENSRNOT00000044028
RefSeq Acc Id: ENSRNOP00000015437   ⟸   ENSRNOT00000015437
RefSeq Acc Id: XP_038959199   ⟸   XM_039103271
- Peptide Label: isoform X3
- UniProtKB: Q91ZL9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038959200   ⟸   XM_039103272
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000094229   ⟸   ENSRNOT00000101369
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O35119-F1-model_v2 AlphaFold O35119 1-977 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:621276 AgrOrtholog
BioCyc Gene G2FUF-53083 BioCyc
Ensembl Genes ENSRNOG00000011133 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000015437 ENTREZGENE
  ENSRNOP00000015437.4 UniProtKB/TrEMBL
  ENSRNOP00000042886 ENTREZGENE
  ENSRNOP00000042886.2 UniProtKB/TrEMBL
  ENSRNOP00000094229.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015437 ENTREZGENE
  ENSRNOT00000015437.6 UniProtKB/TrEMBL
  ENSRNOT00000044028 ENTREZGENE
  ENSRNOT00000044028.4 UniProtKB/TrEMBL
  ENSRNOT00000101369.1 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
  TRPC4_channel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRPC_channel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:84494 UniProtKB/TrEMBL
NCBI Gene 84494 ENTREZGENE
PANTHER PTHR10117 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10117:SF25 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Ion_trans UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRP_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Trpc4 PhenoGen
PRINTS TRNSRECEPTRP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRPCHANNEL4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ANK_REP_REGION UniProtKB/Swiss-Prot
  ANK_REPEAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ANK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48403 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs trp UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6APN9_RAT UniProtKB/TrEMBL
  O35119 ENTREZGENE
  Q91ZL6_RAT UniProtKB/TrEMBL
  Q91ZL7_RAT UniProtKB/TrEMBL
  Q91ZL8_RAT UniProtKB/TrEMBL
  Q91ZL9 ENTREZGENE, UniProtKB/TrEMBL
  Q91ZM0 ENTREZGENE, UniProtKB/TrEMBL
  Q91ZM1 ENTREZGENE, UniProtKB/TrEMBL
  TRPC4_RAT UniProtKB/Swiss-Prot
UniProt Secondary Q9EQ74 UniProtKB/Swiss-Prot
  Q9EQ75 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Trpc4  transient receptor potential cation channel, subfamily C, member 4    transient receptor protein 4  Name updated 1299863 APPROVED
2002-08-07 Trpc4  transient receptor protein 4      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_transcript splice variant Trpc4beta forms a homomultimeric cation channel 625475
gene_transcript splice variants Trpc4alpha and Trpc4beta display receptor mediated activation of calcium transport activity 625475