Cacna1s (calcium voltage-gated channel subunit alpha1 S) - Rat Genome Database

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Gene: Cacna1s (calcium voltage-gated channel subunit alpha1 S) Rattus norvegicus
Analyze
Symbol: Cacna1s
Name: calcium voltage-gated channel subunit alpha1 S
RGD ID: 70983
Description: Enables high voltage-gated calcium channel activity. Involved in calcium ion transport and response to caloric restriction. Located in dendritic spine head and sarcolemma. Part of voltage-gated calcium channel complex. Human ortholog(s) of this gene implicated in congenital myopathy 18; hypokalemic periodic paralysis; and malignant hyperthermia. Orthologous to human CACNA1S (calcium voltage-gated channel subunit alpha1 S); PARTICIPATES IN calcium transport pathway; calcium/calcium-mediated signaling pathway; Alzheimer's disease pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: calcium channel, L type, alpha-1 polypeptide, isoform 3, skeletal muscle; calcium channel, voltage-dependent, L type, alpha 1S subunit; Cchl1a3; LOC501856; LOC682930; RGD1565743; ROB1; similar to dihydropyridine sensitive calcium channel; similar to Voltage-dependent L-type calcium channel alpha-1S subunit (Voltage-gated calcium channel alpha subunit Cav1.1) (Calcium channel, L type, alpha-1 polypeptide, isoform 3, skeletal muscle); voltage-dependent L-type calcium channel subunit alpha-1S; voltage-gated calcium channel subunit alpha Cav1.1
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
GRCr81350,045,668 - 50,115,903 (+)NCBIGRCr8
mRatBN7.21347,493,949 - 47,564,194 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1347,493,949 - 47,564,318 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1350,102,064 - 50,172,290 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01351,390,147 - 51,460,383 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01348,653,326 - 48,727,699 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01352,889,570 - 52,964,558 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1352,889,737 - 52,964,155 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01357,945,479 - 58,018,760 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41349,096,012 - 49,103,925 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1347,809,765 - 47,877,622 (+)NCBICelera
Cytogenetic Map13q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Multiple calcium channel transcripts in rat osteosarcoma cells: selective activation of alpha 1D isoform by parathyroid hormone. Barry EL, etal., Proc Natl Acad Sci U S A 1995 Nov 21;92(24):10914-8.
2. Voltage-gated calcium channels. Catterall WA Cold Spring Harb Perspect Biol. 2011 Aug 1;3(8):a003947. doi: 10.1101/cshperspect.a003947.
3. The gene for the alpha 1 subunit of the skeletal muscle dihydropyridine-sensitive calcium channel (Cchl1a3) maps to mouse chromosome 1. Chin H, etal., Genomics 1992 Dec;14(4):1089-91.
4. Hypokalemic periodic paralysis and the dihydropyridine receptor (CACNL1A3): genotype/phenotype correlations for two predominant mutations and evidence for the absence of a founder effect in 16 caucasian families. Elbaz A, etal., Am J Hum Genet 1995 Feb;56(2):374-80.
5. 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.
6. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
7. Upregulation of the CaV 1.1-ryanodine receptor complex in a rat model of critical illness myopathy. Kraner SD, etal., Am J Physiol Regul Integr Comp Physiol. 2011 Jun;300(6):R1384-91. Epub 2011 Apr 6.
8. Gene Data Set MGD Curation, June 12, 2002
9. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
10. Malignant-hyperthermia susceptibility is associated with a mutation of the alpha 1-subunit of the human dihydropyridine-sensitive L-type voltage-dependent calcium-channel receptor in skeletal muscle. Monnier N, etal., Am J Hum Genet 1997 Jun;60(6):1316-25.
11. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
12. Vitamin D and calcium co-therapy mitigates pre-established cadmium nephropathy by regulating renal calcium homeostatic molecules and improving anti-oxidative and anti-inflammatory activities in rat. Obaid AA, etal., J Trace Elem Med Biol. 2023 May 24;79:127221. doi: 10.1016/j.jtemb.2023.127221.
13. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
14. Online Mendelian Inheritance in Man, OMIM (TM). Online Mendelian Inheritance in Man, OMIM (TM).
15. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
16. Caloric restriction prevents age-related decline in skeletal muscle dihydropyridine receptor and ryanodine receptor expression. Renganathan M and Delbono O, FEBS Lett. 1998 Sep 4;434(3):346-50. doi: 10.1016/s0014-5793(98)01009-6.
17. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
18. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
19. Primary structure of the receptor for calcium channel blockers from skeletal muscle. Tanabe T, etal., Nature 1987 Jul 23-29;328(6128):313-8.
20. Localization of Cacna1s to ON bipolar dendritic tips requires mGluR6-related cascade elements. Tummala SR, etal., Invest Ophthalmol Vis Sci. 2014 Mar 10;55(3):1483-92. doi: 10.1167/iovs.13-13766.
21. Decreased intracellular [Ca2+ ] coincides with reduced expression of Dhprα1s, RyR1, and diaphragmatic dysfunction in a rat model of sepsis. Wang MM, etal., Muscle Nerve. 2017 Dec;56(6):1128-1136. doi: 10.1002/mus.25554. Epub 2017 Mar 23.
22. Molecular characterization and nephron distribution of a family of transcripts encoding the pore-forming subunit of Ca2+ channels in the kidney. Yu AS, etal., Proc Natl Acad Sci U S A 1992 Nov 1;89(21):10494-8.
Additional References at PubMed
PMID:289331   PMID:1281468   PMID:1663002   PMID:2174428   PMID:2419767   PMID:4738109   PMID:5041196   PMID:6500174   PMID:6501560   PMID:6692971   PMID:6692972   PMID:6708965  
PMID:6708966   PMID:7286424   PMID:7635187   PMID:8143864   PMID:8462749   PMID:8943043   PMID:9852570   PMID:9929471   PMID:10444070   PMID:10929205   PMID:10949052   PMID:11206130  
PMID:12954602   PMID:14300095   PMID:14300096   PMID:14618389   PMID:15536090   PMID:16403451   PMID:17204937   PMID:17418573   PMID:18718913   PMID:20101487   PMID:23943510  


Genomics

Comparative Map Data
Cacna1s
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81350,045,668 - 50,115,903 (+)NCBIGRCr8
mRatBN7.21347,493,949 - 47,564,194 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1347,493,949 - 47,564,318 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1350,102,064 - 50,172,290 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01351,390,147 - 51,460,383 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01348,653,326 - 48,727,699 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01352,889,570 - 52,964,558 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1352,889,737 - 52,964,155 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01357,945,479 - 58,018,760 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41349,096,012 - 49,103,925 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1347,809,765 - 47,877,622 (+)NCBICelera
Cytogenetic Map13q13NCBI
CACNA1S
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381201,039,512 - 201,112,426 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1201,039,512 - 201,112,451 (-)EnsemblGRCh38hg38GRCh38
GRCh371201,008,640 - 201,081,554 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361199,275,263 - 199,348,317 (-)NCBINCBI36Build 36hg18NCBI36
Build 341197,740,298 - 197,813,351NCBI
Celera1174,132,677 - 174,205,677 (-)NCBICelera
Cytogenetic Map1q32.1NCBI
HuRef1172,175,337 - 172,248,318 (-)NCBIHuRef
CHM1_11202,431,280 - 202,504,354 (-)NCBICHM1_1
T2T-CHM13v2.01200,296,459 - 200,369,410 (-)NCBIT2T-CHM13v2.0
Cacna1s
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391135,980,549 - 136,047,268 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1135,980,488 - 136,047,560 (+)EnsemblGRCm39 Ensembl
GRCm381136,052,806 - 136,119,822 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1136,052,750 - 136,119,822 (+)EnsemblGRCm38mm10GRCm38
MGSCv371137,949,478 - 138,016,399 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361137,869,312 - 137,936,233 (+)NCBIMGSCv36mm8
Celera1138,687,405 - 138,754,983 (+)NCBICelera
Cytogenetic Map1E4NCBI
cM Map159.55NCBI
Cacna1s
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540637,201,180 - 37,263,371 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540637,201,180 - 37,263,328 (-)NCBIChiLan1.0ChiLan1.0
CACNA1S
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2148,268,156 - 48,341,225 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1148,231,735 - 48,304,843 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01176,639,189 - 176,712,171 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11180,941,836 - 181,014,823 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1180,941,836 - 181,014,823 (-)Ensemblpanpan1.1panPan2
CACNA1S
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.172,108,716 - 2,172,246 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl72,108,455 - 2,303,220 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha71,793,187 - 1,856,620 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.071,755,440 - 1,818,918 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl71,755,328 - 1,818,919 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.171,738,797 - 1,802,223 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.071,841,461 - 1,904,933 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.071,871,249 - 1,934,698 (+)NCBIUU_Cfam_GSD_1.0
Cacna1s
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934474,034,420 - 74,097,190 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365673,269,355 - 3,331,460 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365673,269,283 - 3,331,858 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CACNA1S
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1023,502,898 - 23,568,058 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11023,503,701 - 23,567,797 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21027,934,779 - 27,999,415 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CACNA1S
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12528,288,483 - 28,363,231 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2528,289,342 - 28,363,327 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605529,088,659 - 29,162,753 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cacna1s
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248079,559,954 - 9,619,132 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248079,560,004 - 9,618,942 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cacna1s
453 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:67
Count of miRNA genes:63
Interacting mature miRNAs:66
Transcripts:ENSRNOT00000074366
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
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)13931346554313465Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)13931346554313465Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131491565559915655Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131515872260158722Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131769443653050594Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132230187567301875Rat
70170Eae14Experimental allergic encephalomyelitis QTL 140.0024nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)132320344868203448Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132369296968692969Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132369296968692969Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
2301962Cm72Cardiac mass QTL 724.12heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)133124133158363171Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133228447177284471Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133453521879535218Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133726209282262092Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
4889861Pur29Proteinuria QTL 2913.80.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133741558480753406Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133741558482415584Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
4145117Mcs27Mammary carcinoma susceptibility QTL 270.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)134343790447841255Rat
6893344Cm79Cardiac mass QTL 791.50.04heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)134372077062022792Rat
12879444Bp397Blood pressure QTL 397arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134504940490049404Rat
12879472Bp399Blood pressure QTL 399arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134522835847841255Rat
12879471Bp398Blood pressure QTL 398arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134551471990514719Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134619797684753113Rat

Markers in Region
RH132481  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21347,563,737 - 47,563,929 (+)MAPPERmRatBN7.2
Rnor_6.01352,964,102 - 52,964,293NCBIRnor6.0
Rnor_5.01358,018,304 - 58,018,495UniSTSRnor5.0
Celera1347,877,166 - 47,877,357UniSTS
RH71040  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21347,527,372 - 47,527,449 (+)MAPPERmRatBN7.2
Rnor_6.01352,921,656 - 52,921,732NCBIRnor6.0
Rnor_5.01357,976,805 - 57,976,881UniSTSRnor5.0
Celera1347,842,103 - 47,842,179UniSTS


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 8 11 8
Low 22 11 7 4 7 6 13 7
Below cutoff 3 8 35 23 15 23 40 24 24 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000074366   ⟹   ENSRNOP00000067264
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1347,493,949 - 47,564,194 (+)Ensembl
Rnor_6.0 Ensembl1352,889,737 - 52,964,155 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113109   ⟹   ENSRNOP00000094111
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1347,493,949 - 47,564,318 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000116181   ⟹   ENSRNOP00000078008
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1347,493,949 - 47,564,194 (+)Ensembl
RefSeq Acc Id: NM_053873   ⟹   NP_446325
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81350,045,668 - 50,115,903 (+)NCBI
mRatBN7.21347,493,949 - 47,564,194 (+)NCBI
Rnor_6.01352,889,570 - 52,964,558 (+)NCBI
Rnor_5.01357,945,479 - 58,018,760 (+)NCBI
Celera1347,809,765 - 47,877,622 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_446325 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA40844 (Get FASTA)   NCBI Sequence Viewer  
  AAA40894 (Get FASTA)   NCBI Sequence Viewer  
  AAA89158 (Get FASTA)   NCBI Sequence Viewer  
  BAG54980 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000067264
  ENSRNOP00000067264.3
  ENSRNOP00000078008.1
  ENSRNOP00000094111.1
GenBank Protein Q02485 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_446325   ⟸   NM_053873
- UniProtKB: Q62817 (UniProtKB/Swiss-Prot),   B3XZL8 (UniProtKB/Swiss-Prot),   Q02485 (UniProtKB/Swiss-Prot),   Q01553 (UniProtKB/Swiss-Prot),   P70484 (UniProtKB/Swiss-Prot),   M0RCE9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067264   ⟸   ENSRNOT00000074366
RefSeq Acc Id: ENSRNOP00000078008   ⟸   ENSRNOT00000116181
RefSeq Acc Id: ENSRNOP00000094111   ⟸   ENSRNOT00000113109
Protein Domains
Voltage-dependent calcium channel alpha-1 subunit

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q02485-F1-model_v2 AlphaFold Q02485 1-1850 view protein structure

Transcriptome

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

Promoters
RGD ID:13698853
Promoter ID:EPDNEW_R9377
Type:multiple initiation site
Name:Cacna1s_1
Description:calcium voltage-gated channel subunit alpha1 S
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01352,889,649 - 52,889,709EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:70983 AgrOrtholog
BioCyc Gene G2FUF-18184 BioCyc
Ensembl Genes ENSRNOG00000046231 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000074366 ENTREZGENE
  ENSRNOT00000074366.3 UniProtKB/TrEMBL
  ENSRNOT00000113109.1 UniProtKB/TrEMBL
  ENSRNOT00000116181.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.70 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.20.120.350 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  6.10.250.2180 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  6.10.250.2500 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro CAC1F_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPHH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ion_trans_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VDCC_a1su_IQ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VDCC_L_a1ssu UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VDCC_L_a1su UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VDCCAlpha1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Volt_channel_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:682930 UniProtKB/Swiss-Prot
NCBI Gene Cacna1s ENTREZGENE
PANTHER VOLTAGE-DEPENDENT CALCIUM CHANNEL TYPE A SUBUNIT ALPHA-1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VOLTAGE-DEPENDENT L-TYPE CALCIUM CHANNEL SUBUNIT ALPHA-1S UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Ca_chan_IQ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CAC1F_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPHH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ion_trans UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cacna1s PhenoGen
PRINTS CACHANNEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LVDCCALPHA1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LVDCCALPHA1S UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000046231 RatGTEx
SMART Ca_chan_IQ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Voltage-gated potassium channels UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5Y8D5_RAT UniProtKB/TrEMBL
  A0A8I6GL06_RAT UniProtKB/TrEMBL
  B3XZL8 ENTREZGENE
  CAC1S_RAT UniProtKB/Swiss-Prot
  M0RCE9 ENTREZGENE, UniProtKB/TrEMBL
  P70484 ENTREZGENE
  Q01553 ENTREZGENE
  Q02485 ENTREZGENE
  Q62817 ENTREZGENE
UniProt Secondary B3XZL8 UniProtKB/Swiss-Prot
  P70484 UniProtKB/Swiss-Prot
  Q01553 UniProtKB/Swiss-Prot
  Q62817 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Cacna1s  calcium voltage-gated channel subunit alpha1 S  Cacna1s  calcium channel, voltage-dependent, L type, alpha 1S subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-29 Cacna1s  calcium channel, voltage-dependent, L type, alpha 1S subunit  RGD1565743  similar to dihydropyridine sensitive calcium channel  Data merged from RGD:1565743 737654 PROVISIONAL
2008-10-07 Cacna1s  calcium channel, voltage-dependent, L type, alpha 1S subunit  LOC682930  similar to Voltage-dependent L-type calcium channel alpha-1S subunit (Voltage-gated calcium channel alpha subunit Cav1.1) (Calcium channel, L type, alpha-1 polypeptide, isoform 3, skeletal muscle)  Data merged from RGD:1592814 737654 APPROVED
2008-04-30 RGD1565743  similar to dihydropyridine sensitive calcium channel   RGD1565743_predicted  similar to dihydropyridine sensitive calcium channel (predicted)  'predicted' is removed 2292626 APPROVED
2006-11-20 LOC682930  similar to Voltage-dependent L-type calcium channel alpha-1S subunit (Voltage-gated calcium channel alpha subunit Cav1.1) (Calcium channel, L type, alpha-1 polypeptide, isoform 3, skeletal muscle)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1565743_predicted  similar to dihydropyridine sensitive calcium channel (predicted)  LOC501856  similar to dihydropyridine sensitive calcium channel  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC501856  similar to dihydropyridine sensitive calcium channel      Symbol and Name status set to provisional 70820 PROVISIONAL
2002-07-09 Cacna1s  calcium channel, voltage-dependent, L type, alpha 1S subunit      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference