Cacna1d (calcium voltage-gated channel subunit alpha1 D) - Rat Genome Database

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Gene: Cacna1d (calcium voltage-gated channel subunit alpha1 D) Rattus norvegicus
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Symbol: Cacna1d
Name: calcium voltage-gated channel subunit alpha1 D
RGD ID: 70973
Description: Enables PDZ domain binding activity; ankyrin binding activity; and high voltage-gated calcium channel activity. Involved in several processes, including calcium ion import; cellular response to amyloid-beta; and positive regulation of transport. Located in several cellular components, including dendrite; perikaryon; and sarcolemma. Biomarker of sciatic neuropathy. Human ortholog(s) of this gene implicated in type 2 diabetes mellitus. Orthologous to human CACNA1D (calcium voltage-gated channel subunit alpha1 D); PARTICIPATES IN calcium transport pathway; calcium/calcium-mediated signaling pathway; Alzheimer's disease pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: brain class D; calcium channel alpha-1 subunit; calcium channel, L type, alpha-1 polypeptide; calcium channel, L type, alpha-1 polypeptide, isoform 2; calcium channel, voltage-dependent, L type, alpha 1D subunit; CaV1.3alpha1; RBD; voltage-dependent calcium channel subunit alpha1D; voltage-dependent L-type calcium channel subunit alpha-1D; voltage-gated calcium channel pore forming subunit CaV1.3alpha1 IVS3-IVS4 extracellular linker; voltage-gated calcium channel subunit alpha Cav1.3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2165,227,157 - 5,521,163 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl165,228,306 - 5,668,215 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx165,239,219 - 5,533,279 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0166,384,647 - 6,678,728 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0165,236,683 - 5,531,953 (-)NCBIRnor_WKY
Rnor_6.0166,110,294 - 6,405,022 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl166,112,150 - 6,405,117 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0166,044,524 - 6,339,170 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4165,383,259 - 5,703,361 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1165,383,256 - 5,703,359NCBI
Celera169,667,490 - 9,955,564 (+)NCBICelera
RH 3.4 Map161.3RGD
Cytogenetic Map16p16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (ISO)
(S)-nicotine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
acetamide  (EXP)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
amphetamine  (ISO)
androgen antagonist  (EXP)
Aroclor 1254  (EXP)
arsenite(3-)  (ISO)
barium(0)  (EXP,ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (ISO)
butanal  (ISO)
Butylparaben  (EXP)
C60 fullerene  (EXP)
cadmium dichloride  (EXP)
calcium atom  (EXP,ISO)
calcium(0)  (EXP,ISO)
chloroprene  (ISO)
chlorpyrifos  (ISO)
cisplatin  (ISO)
cobalt dichloride  (EXP)
cocaine  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
DDE  (EXP)
deoxynivalenol  (ISO)
dibutyl phthalate  (EXP)
enzacamene  (EXP)
epoxiconazole  (EXP)
folic acid  (ISO)
formaldehyde  (EXP)
fulvestrant  (ISO)
gabapentin  (EXP)
glyphosate  (ISO)
linuron  (EXP)
MeIQx  (ISO)
metformin  (EXP)
methapyrilene  (ISO)
N-Nitrosopyrrolidine  (ISO)
nickel atom  (ISO)
nicotine  (ISO)
nitrofen  (EXP)
O-methyleugenol  (ISO)
p-menthan-3-ol  (ISO)
paracetamol  (EXP)
perfluorooctanoic acid  (EXP)
phenobarbital  (EXP)
pirinixic acid  (EXP)
pregnenolone 16alpha-carbonitrile  (ISO)
prochloraz  (EXP)
procymidone  (EXP)
progesterone  (ISO)
quercetin  (EXP)
scopolamine  (EXP)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
sodium disulfite  (EXP)
sotorasib  (ISO)
tebuconazole  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
trametinib  (ISO)
trichloroethene  (EXP)
triclosan  (ISO)
trimellitic anhydride  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
trovafloxacin  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adenylate cyclase-modulating G protein-coupled receptor signaling pathway  (ISO)
aging  (IEP)
calcium ion import  (IEA,IMP,ISO)
calcium ion import across plasma membrane  (IBA)
calcium ion transmembrane transport  (IEA,ISO)
calcium ion transport  (IDA,ISO)
calcium-mediated signaling  (IDA)
cardiac muscle cell action potential involved in contraction  (IEA,ISO)
cellular response to amyloid-beta  (IEP)
establishment of localization in cell  (ISO)
heart development  (IEP)
induction of synaptic vesicle exocytosis by positive regulation of presynaptic cytosolic calcium ion concentration  (IEA)
membrane depolarization during cardiac muscle cell action potential  (IC)
membrane depolarization during SA node cell action potential  (IEA,ISO)
memory  (IEP)
metal ion transport  (IMP)
optic nerve development  (IEP)
positive regulation of adenylate cyclase activity  (ISO,ISS)
positive regulation of calcium ion transmembrane transport via high voltage-gated calcium channel  (IMP)
positive regulation of calcium ion transport  (IEA,ISO)
positive regulation of CREB transcription factor activity  (IMP)
positive regulation of insulin secretion involved in cellular response to glucose stimulus  (IMP)
positive regulation of membrane depolarization  (IDA)
regulation of atrial cardiac muscle cell membrane repolarization  (ISO)
regulation of calcium ion transport  (IDA)
regulation of heart rate by cardiac conduction  (IEA,ISO)
regulation of monoatomic ion transmembrane transport  (IEA)
regulation of potassium ion transmembrane transport  (ISO)
regulation of potassium ion transmembrane transporter activity  (ISO)
regulation of presynaptic cytosolic calcium ion concentration  (IEA)
response to estradiol  (IEP)
sensory perception of sound  (IEA,ISO)

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. Erbin enhances voltage-dependent facilitation of Ca(v)1.3 Ca2+ channels through relief of an autoinhibitory domain in the Ca(v)1.3 alpha1 subunit. Calin-Jageman I, etal., J Neurosci. 2007 Feb 7;27(6):1374-85.
3. Voltage-gated calcium channels. Catterall WA Cold Spring Harb Perspect Biol. 2011 Aug 1;3(8):a003947. doi: 10.1101/cshperspect.a003947.
4. Downregulation of Cav1.3 calcium channel expression in the cochlea is associated with age-related hearing loss in C57BL/6J mice. Chen J, etal., Neuroreport. 2013 Apr 17;24(6):313-7. doi: 10.1097/WNR.0b013e32835fa79c.
5. Defects in ankyrin-based membrane protein targeting pathways underlie atrial fibrillation. Cunha SR, etal., Circulation. 2011 Sep 13;124(11):1212-22. Epub 2011 Aug 22.
6. Distribution and regulation of L-type calcium channels in deep dorsal horn neurons after sciatic nerve injury in rats. Dobremez E, etal., Eur J Neurosci. 2005 Jun;21(12):3321-33.
7. Molecular cloning of the alpha-1 subunit of an omega-conotoxin-sensitive calcium channel. Dubel SJ, etal., Proc Natl Acad Sci U S A 1992 Jun 1;89(11):5058-62.
8. 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.
9. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
10. Calcium- and calmodulin-dependent inactivation of calcium channels in inner hair cells of the rat cochlea. Grant L and Fuchs P, J Neurophysiol. 2008 May;99(5):2183-93. doi: 10.1152/jn.01174.2007. Epub 2008 Mar 5.
11. Coexpression of high-voltage-activated ion channels Kv3.4 and Cav1.2 in pioneer axons during pathfinding in the developing rat forebrain. Huang CY, etal., J Comp Neurol. 2012 Nov 1;520(16):3650-72. doi: 10.1002/cne.23119.
12. [Ca2+]i regulates trafficking of Cav1.3 (alpha1D Ca2+ channel) in insulin-secreting cells. Huang L, etal., Am J Physiol Cell Physiol. 2004 Feb;286(2):C213-21. doi: 10.1152/ajpcell.00346.2003. Epub 2003 Oct 8.
13. Molecular cloning of multiple subtypes of a novel rat brain isoform of the alpha 1 subunit of the voltage-dependent calcium channel. Hui A, etal., Neuron 1991 Jul;7(1):35-44.
14. Molecular diversity and functional characterization of voltage-dependent calcium channels (CACN4) expressed in pancreatic beta-cells. Ihara Y, etal., Mol Endocrinol 1995 Jan;9(1):121-30.
15. Solution structures of the SH3 domains from Shank scaffold proteins and their interactions with Cav1.3 calcium channels. Ishida H, etal., FEBS Lett. 2018 Aug;592(16):2786-2797. doi: 10.1002/1873-3468.13209. Epub 2018 Aug 12.
16. Silencing of Cav1.2 gene in neonatal cardiomyocytes by lentiviral delivered shRNA. Karnabi E, etal., Biochem Biophys Res Commun. 2009 Jul 10;384(4):409-14. doi: 10.1016/j.bbrc.2009.04.150. Epub 2009 May 5.
17. Effects of amyloid-ß peptides on voltage-gated L-type Ca(V)1.2 and Ca(V)1.3 Ca(2+) channels. Kim S and Rhim H, Mol Cells. 2011 Sep;32(3):289-94. doi: 10.1007/s10059-011-0075-x. Epub 2011 Aug 4.
18. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
19. Expression of voltage-gated Ca2+ channel subtypes in cultured astrocytes. Latour I, etal., Glia 2003 Mar;41(4):347-53.
20. Ca(V)1.2 and Ca(V)1.3 L-type calcium channels regulate the resting membrane potential but not the expression of calcium transporters in differentiated PC12 cells. Lichvárová L and Lacinová L, Gen Physiol Biophys. 2015 Apr;34(2):157-65. doi: 10.4149/gpb_2014045. Epub 2015 Feb 12.
21. Gene Data Set MGD Curation, June 12, 2002
22. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
23. A role for Ca(v)1.3 in rat intestinal calcium absorption. Morgan EL, etal., Biochem Biophys Res Commun. 2003 Dec 12;312(2):487-93.
24. Apical GLUT2 and Cav1.3: regulation of rat intestinal glucose and calcium absorption. Morgan EL, etal., J Physiol. 2007 Apr 15;580(Pt. 2):593-604. Epub 2007 Feb 1.
25. Voltage-gated calcium channels in adult rat inferior colliculus neurons. N'Gouemo P and Morad M, Neuroscience 2003;120(3):815-26.
26. Alcohol Withdrawal-Induced Seizure Susceptibility is Associated with an Upregulation of CaV1.3 Channels in the Rat Inferior Colliculus. N'Gouemo P, etal., Int J Neuropsychopharmacol. 2015 Jan 2;18(7):pyu123. doi: 10.1093/ijnp/pyu123.
27. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
28. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
29. Direct interaction and functional coupling between voltage-gated CaV1.3 Ca2+ channel and GABAB receptor subunit 2. Park HW, etal., FEBS Lett. 2010 Aug 4;584(15):3317-22. doi: 10.1016/j.febslet.2010.07.014. Epub 2010 Jul 11.
30. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
31. Congenital deafness and sinoatrial node dysfunction in mice lacking class D L-type Ca2+ channels. Platzer J, etal., Cell 2000 Jul 7;102(1):89-97.
32. Perinatal and postnatal expression of Cav1.3 alpha1D Ca(2)(+) channel in the rat heart. Qu Y, etal., Pediatr Res. 2011 Jun;69(6):479-84.
33. The human L-type calcium channel Cav1.3 regulates insulin release and polymorphisms in CACNA1D associate with type 2 diabetes. Reinbothe TM, etal., Diabetologia. 2013 Feb;56(2):340-9. doi: 10.1007/s00125-012-2758-z. Epub 2012 Nov 15.
34. GOA pipeline RGD automated data pipeline
35. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
36. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
37. Functional properties of Cav1.3 (alpha1D) L-type Ca2+ channel splice variants expressed by rat brain and neuroendocrine GH3 cells. Safa P, etal., J Biol Chem 2001 Oct 19;276(42):38727-37.
38. Antagonizing L-type Ca2+ channel reduces development of abnormal involuntary movement in the rat model of L-3,4-dihydroxyphenylalanine-induced dyskinesia. Schuster S, etal., Biol Psychiatry. 2009 Mar 15;65(6):518-26. Epub 2008 Oct 23.
39. Distribution of calcium channel Ca(V)1.3 immunoreactivity in the rat spinal cord and brain stem. Sukiasyan N, etal., Neuroscience. 2009 Mar 3;159(1):217-35. doi: 10.1016/j.neuroscience.2008.12.011. Epub 2008 Dec 14.
40. Regionally selective alterations in expression of the alpha(1D) subunit (Ca(v)1.3) of L-type calcium channels in the hippocampus of aged rats. Veng LM and Browning MD, Brain Res Mol Brain Res. 2002 Nov 15;107(2):120-7.
41. Age-related working memory impairment is correlated with increases in the L-type calcium channel protein alpha1D (Cav1.3) in area CA1 of the hippocampus and both are ameliorated by chronic nimodipine treatment. Veng LM, etal., Brain Res Mol Brain Res 2003 Feb 20;110(2):193-202.
42. Neuronal Ca(V)1.3alpha(1) L-type channels activate at relatively hyperpolarized membrane potentials and are incompletely inhibited by dihydropyridines. Xu W and Lipscombe D, J Neurosci 2001 Aug 15;21(16):5944-51.
43. The levels of Pdx1/insulin, Cacna1c and Cacna1d, and β-cell mass in a rat model of intrauterine undernutrition. Xu YP, etal., J Matern Fetal Neonatal Med. 2011 Mar;24(3):437-43. doi: 10.3109/14767058.2010.497571. Epub 2010 Sep 27.
44. The role of voltage-gated calcium channels in pancreatic beta-cell physiology and pathophysiology. Yang SN and Berggren PO, Endocr Rev. 2006 Oct;27(6):621-76. Epub 2006 Jul 25.
45. 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.
46. Ca1.2 and CaV1.3 neuronal L-type calcium channels: differential targeting and signaling to pCREB. Zhang H, etal., Eur J Neurosci. 2006 May;23(9):2297-310.
47. [Estrogen reduces the expressions of ryanodine receptor type 1 and Cav1.3 L-type calcium channel in the vaginal smooth muscle cells of rats]. Zhou QG, etal., Zhonghua Nan Ke Xue. 2009 Jun;15(6):511-6.
Additional References at PubMed
PMID:1309651   PMID:1692134   PMID:7553731   PMID:9232351   PMID:10468580   PMID:11160515   PMID:12531517   PMID:12700358   PMID:12900400   PMID:15689539   PMID:15932895   PMID:16354915  
PMID:16973824   PMID:17074442   PMID:17110593   PMID:17272349   PMID:17823125   PMID:17909852   PMID:18562674   PMID:18832177   PMID:19074150   PMID:19665524   PMID:20007466   PMID:20112737  
PMID:20137275   PMID:20142517   PMID:20218309   PMID:20392935   PMID:21131953   PMID:21408608   PMID:21998309   PMID:22760075   PMID:23807706   PMID:24033980   PMID:24086669   PMID:25620733  
PMID:25648081   PMID:27231046   PMID:27255217   PMID:27905406   PMID:28402855   PMID:28472301   PMID:28665272   PMID:28807144   PMID:28916724   PMID:31770099   PMID:31983427   PMID:33124763  
PMID:34681928   PMID:35142739  


Genomics

Comparative Map Data
Cacna1d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2165,227,157 - 5,521,163 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl165,228,306 - 5,668,215 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx165,239,219 - 5,533,279 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0166,384,647 - 6,678,728 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0165,236,683 - 5,531,953 (-)NCBIRnor_WKY
Rnor_6.0166,110,294 - 6,405,022 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl166,112,150 - 6,405,117 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0166,044,524 - 6,339,170 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4165,383,259 - 5,703,361 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1165,383,256 - 5,703,359NCBI
Celera169,667,490 - 9,955,564 (+)NCBICelera
RH 3.4 Map161.3RGD
Cytogenetic Map16p16NCBI
CACNA1D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38353,494,611 - 53,813,733 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl353,328,963 - 53,813,733 (+)EnsemblGRCh38hg38GRCh38
GRCh37353,528,638 - 53,847,760 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36353,504,116 - 53,821,001 (+)NCBINCBI36Build 36hg18NCBI36
Build 34353,504,115 - 53,821,001NCBI
Celera353,496,179 - 53,813,773 (+)NCBICelera
Cytogenetic Map3p21.1NCBI
HuRef353,577,566 - 53,895,012 (+)NCBIHuRef
CHM1_1353,480,800 - 53,798,135 (+)NCBICHM1_1
T2T-CHM13v2.0353,527,880 - 53,846,976 (+)NCBIT2T-CHM13v2.0
Cacna1d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391429,761,898 - 30,213,113 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1429,761,896 - 30,213,412 (-)EnsemblGRCm39 Ensembl
GRCm381430,039,941 - 30,491,156 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1430,039,939 - 30,491,455 (-)EnsemblGRCm38mm10GRCm38
MGSCv371430,853,125 - 31,304,342 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361428,871,082 - 29,320,165 (-)NCBIMGSCv36mm8
Celera1426,295,784 - 26,747,696 (-)NCBICelera
Cytogenetic Map14A3- BNCBI
cM Map1418.43NCBI
Cacna1d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554303,268,953 - 3,794,592 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554303,450,151 - 3,796,983 (+)NCBIChiLan1.0ChiLan1.0
CACNA1D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1354,654,121 - 54,972,755 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl354,495,952 - 54,970,444 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0353,432,189 - 53,751,347 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CACNA1D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12036,189,986 - 36,488,460 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2036,191,810 - 36,613,686 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2036,127,167 - 36,425,020 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02036,464,261 - 36,765,714 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2036,464,264 - 36,891,695 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12035,905,766 - 36,203,511 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02036,264,311 - 36,565,496 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02036,481,867 - 36,779,827 (-)NCBIUU_Cfam_GSD_1.0
Cacna1d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118171,026,002 - 171,341,293 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364734,037,533 - 4,478,073 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049364734,164,633 - 4,479,866 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CACNA1D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1335,436,519 - 35,909,662 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11335,568,534 - 35,911,483 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21338,638,092 - 38,980,243 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CACNA1D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12214,868,459 - 15,195,002 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2215,027,565 - 15,197,101 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041151,696,363 - 152,023,286 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cacna1d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248223,392,044 - 3,919,415 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248223,391,045 - 3,734,258 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cacna1d
1894 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1701
Count of miRNA genes:298
Interacting mature miRNAs:375
Transcripts:ENSRNOT00000017975, ENSRNOT00000040759, ENSRNOT00000043180, ENSRNOT00000045459, ENSRNOT00000047737, ENSRNOT00000048459, ENSRNOT00000049531, ENSRNOT00000051371
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
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1619639137Rat
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
631561Hcuc2Hepatic copper content QTL 22.8liver copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)16285170915884239Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16338015021361552Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat
737825Alc13Alcohol consumption QTL 134.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760916039848Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16422760943025077Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
61372Bp40Blood pressure QTL 402.2blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)16422773017696785Rat

Markers in Region
D16Got114  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2165,372,764 - 5,372,903 (+)MAPPERmRatBN7.2
Rnor_6.0166,257,045 - 6,257,183NCBIRnor6.0
Rnor_5.0166,189,933 - 6,190,071UniSTSRnor5.0
RGSC_v3.4165,527,912 - 5,528,050UniSTSRGSC3.4
Cytogenetic Map16p16UniSTS
RH143397  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2165,411,525 - 5,411,767 (+)MAPPERmRatBN7.2
Rnor_6.0166,295,088 - 6,295,329NCBIRnor6.0
Rnor_5.0166,227,976 - 6,228,217UniSTSRnor5.0
RGSC_v3.4165,565,955 - 5,566,196UniSTSRGSC3.4
Celera169,773,472 - 9,773,713UniSTS
RH 3.4 Map1622.3UniSTS
Cytogenetic Map16p16UniSTS
AI555146  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2165,242,726 - 5,242,946 (+)MAPPERmRatBN7.2
Rnor_6.0166,126,571 - 6,126,790NCBIRnor6.0
Rnor_5.0166,060,094 - 6,060,313UniSTSRnor5.0
RGSC_v3.4165,397,680 - 5,397,899UniSTSRGSC3.4
Celera169,940,922 - 9,941,141UniSTS
RH 3.4 Map163.5UniSTS
Cytogenetic Map16p16UniSTS
BE113526  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2165,264,430 - 5,264,598 (+)MAPPERmRatBN7.2
Rnor_6.0166,148,271 - 6,148,438NCBIRnor6.0
Rnor_5.0166,081,794 - 6,081,961UniSTSRnor5.0
RGSC_v3.4165,419,380 - 5,419,547UniSTSRGSC3.4
Celera169,919,305 - 9,919,472UniSTS
RH 3.4 Map1611.6UniSTS
Cytogenetic Map16p16UniSTS
BE113723  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0166,182,626 - 6,182,793NCBIRnor5.0
Rnor_5.0166,182,029 - 6,182,196NCBIRnor5.0
RGSC_v3.4165,520,606 - 5,520,772UniSTSRGSC3.4
RGSC_v3.4165,519,959 - 5,520,125UniSTSRGSC3.4
Celera169,819,468 - 9,819,634UniSTS
RH 3.4 Map1622.3UniSTS
Cytogenetic Map16p16UniSTS
RH94500  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2165,245,312 - 5,245,497 (+)MAPPERmRatBN7.2
Rnor_6.0166,129,155 - 6,129,339NCBIRnor6.0
Rnor_5.0166,062,678 - 6,062,862UniSTSRnor5.0
RGSC_v3.4165,400,264 - 5,400,448UniSTSRGSC3.4
Celera169,938,403 - 9,938,587UniSTS
RH 3.4 Map161.3UniSTS
Cytogenetic Map16p16UniSTS
PMC18246P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2165,295,194 - 5,295,984 (+)MAPPERmRatBN7.2
Rnor_6.0166,179,034 - 6,179,823NCBIRnor6.0
Rnor_5.0166,112,557 - 6,113,346UniSTSRnor5.0
RGSC_v3.4165,450,144 - 5,450,933UniSTSRGSC3.4
Celera169,887,920 - 9,888,709UniSTS
Cytogenetic Map16p16UniSTS


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 4 6 58 21 8
Low 3 35 51 41 19 41 2 2 16 35 20 3 2
Below cutoff 4 6 9 6

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001389225 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_017298 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252595 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252597 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770991 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770992 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600055 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600056 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600057 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600058 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600059 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600060 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600061 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600062 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600063 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600064 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600065 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600070 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094434 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094435 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005494597 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005494598 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005494599 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC142010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF370009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF370010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF370011 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF370012 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF439401 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH011547 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474046 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D38101 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D38102 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232509 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000273 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M57682 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M99221 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U14005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U31772 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U49126 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U49127 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U49128 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000040759   ⟹   ENSRNOP00000041766
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl165,228,306 - 5,519,336 (-)Ensembl
Rnor_6.0 Ensembl166,113,168 - 6,245,644 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000047737   ⟹   ENSRNOP00000042492
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl165,228,306 - 5,520,993 (-)Ensembl
Rnor_6.0 Ensembl166,129,089 - 6,405,117 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000048459   ⟹   ENSRNOP00000043046
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl165,228,306 - 5,520,993 (-)Ensembl
Rnor_6.0 Ensembl166,112,150 - 6,404,957 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000051371   ⟹   ENSRNOP00000051407
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl165,228,306 - 5,668,215 (-)Ensembl
Rnor_6.0 Ensembl166,129,800 - 6,404,578 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095730   ⟹   ENSRNOP00000084179
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl165,228,306 - 5,520,993 (-)Ensembl
RefSeq Acc Id: NM_001389225   ⟹   NP_001376154
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,227,165 - 5,521,059 (-)NCBI
RefSeq Acc Id: XM_006252590   ⟹   XP_006252652
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,229,324 - 5,521,075 (-)NCBI
Rnor_6.0166,113,168 - 6,404,605 (-)NCBI
Rnor_5.0166,044,524 - 6,339,170 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006252594   ⟹   XP_006252656
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,229,324 - 5,521,075 (-)NCBI
Rnor_6.0166,113,168 - 6,404,605 (-)NCBI
Rnor_5.0166,044,524 - 6,339,170 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006252595   ⟹   XP_006252657
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,229,324 - 5,521,075 (-)NCBI
Rnor_6.0166,113,168 - 6,404,605 (-)NCBI
Rnor_5.0166,044,524 - 6,339,170 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006252597   ⟹   XP_006252659
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,229,324 - 5,521,075 (-)NCBI
Rnor_6.0166,113,168 - 6,404,605 (-)NCBI
Rnor_5.0166,044,524 - 6,339,170 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600055   ⟹   XP_017455544
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,227,157 - 5,521,075 (-)NCBI
Rnor_6.0166,110,294 - 6,405,022 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600056   ⟹   XP_017455545
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,227,157 - 5,521,075 (-)NCBI
Rnor_6.0166,110,294 - 6,405,022 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600057   ⟹   XP_017455546
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,227,157 - 5,521,075 (-)NCBI
Rnor_6.0166,110,294 - 6,405,022 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600058   ⟹   XP_017455547
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,227,157 - 5,521,075 (-)NCBI
Rnor_6.0166,110,294 - 6,405,021 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600059   ⟹   XP_017455548
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,227,157 - 5,521,075 (-)NCBI
Rnor_6.0166,110,294 - 6,405,021 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600060   ⟹   XP_017455549
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,227,157 - 5,521,075 (-)NCBI
Rnor_6.0166,110,294 - 6,405,021 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600061   ⟹   XP_017455550
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,227,157 - 5,521,075 (-)NCBI
Rnor_6.0166,110,294 - 6,405,021 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600062   ⟹   XP_017455551
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,227,157 - 5,521,075 (-)NCBI
Rnor_6.0166,113,168 - 6,405,022 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600064   ⟹   XP_017455553
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,227,157 - 5,521,075 (-)NCBI
Rnor_6.0166,110,294 - 6,405,021 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600065   ⟹   XP_017455554
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,227,157 - 5,521,075 (-)NCBI
Rnor_6.0166,110,294 - 6,405,021 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600066   ⟹   XP_017455555
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,237,021 - 5,521,078 (-)NCBI
Rnor_6.0166,120,920 - 6,405,022 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039094434   ⟹   XP_038950362
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,227,157 - 5,521,075 (-)NCBI
RefSeq Acc Id: XM_039094435   ⟹   XP_038950363
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,265,799 - 5,521,079 (-)NCBI
RefSeq Acc Id: XR_005494597
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,238,073 - 5,521,078 (-)NCBI
RefSeq Acc Id: XR_005494598
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,238,073 - 5,521,078 (-)NCBI
RefSeq Acc Id: XR_005494599
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2165,238,073 - 5,521,163 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001376154 (Get FASTA)   NCBI Sequence Viewer  
  XP_006252652 (Get FASTA)   NCBI Sequence Viewer  
  XP_006252656 (Get FASTA)   NCBI Sequence Viewer  
  XP_006252657 (Get FASTA)   NCBI Sequence Viewer  
  XP_006252659 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455544 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455545 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455546 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455547 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455548 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455549 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455550 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455551 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455553 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455554 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455555 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950362 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950363 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA40895 (Get FASTA)   NCBI Sequence Viewer  
  AAA42015 (Get FASTA)   NCBI Sequence Viewer  
  AAA89156 (Get FASTA)   NCBI Sequence Viewer  
  AAB60515 (Get FASTA)   NCBI Sequence Viewer  
  AAB61634 (Get FASTA)   NCBI Sequence Viewer  
  AAB61635 (Get FASTA)   NCBI Sequence Viewer  
  AAB61636 (Get FASTA)   NCBI Sequence Viewer  
  AAK72959 (Get FASTA)   NCBI Sequence Viewer  
  AAK72960 (Get FASTA)   NCBI Sequence Viewer  
  AAK72961 (Get FASTA)   NCBI Sequence Viewer  
  AAK72962 (Get FASTA)   NCBI Sequence Viewer  
  AAL58322 (Get FASTA)   NCBI Sequence Viewer  
  AAL89640 (Get FASTA)   NCBI Sequence Viewer  
  AAL89641 (Get FASTA)   NCBI Sequence Viewer  
  AAL89642 (Get FASTA)   NCBI Sequence Viewer  
  BAA07282 (Get FASTA)   NCBI Sequence Viewer  
  BAA07283 (Get FASTA)   NCBI Sequence Viewer  
  EDL89001 (Get FASTA)   NCBI Sequence Viewer  
  EDL89002 (Get FASTA)   NCBI Sequence Viewer  
  EDL89003 (Get FASTA)   NCBI Sequence Viewer  
  EDL89004 (Get FASTA)   NCBI Sequence Viewer  
  EDL89005 (Get FASTA)   NCBI Sequence Viewer  
  P27732 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_006252657   ⟸   XM_006252595
- Peptide Label: isoform X13
- Sequence:
RefSeq Acc Id: XP_006252652   ⟸   XM_006252590
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_006252659   ⟸   XM_006252597
- Peptide Label: isoform X15
- Sequence:
RefSeq Acc Id: XP_006252656   ⟸   XM_006252594
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: XP_017455546   ⟸   XM_017600057
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017455544   ⟸   XM_017600055
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017455545   ⟸   XM_017600056
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017455548   ⟸   XM_017600059
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017455554   ⟸   XM_017600065
- Peptide Label: isoform X14
- Sequence:
RefSeq Acc Id: XP_017455553   ⟸   XM_017600064
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_017455550   ⟸   XM_017600061
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017455547   ⟸   XM_017600058
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017455549   ⟸   XM_017600060
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017455551   ⟸   XM_017600062
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_017455555   ⟸   XM_017600066
- Peptide Label: isoform X16
- Sequence:
RefSeq Acc Id: ENSRNOP00000042492   ⟸   ENSRNOT00000047737
RefSeq Acc Id: ENSRNOP00000043046   ⟸   ENSRNOT00000048459
RefSeq Acc Id: ENSRNOP00000051407   ⟸   ENSRNOT00000051371
RefSeq Acc Id: ENSRNOP00000041766   ⟸   ENSRNOT00000040759
RefSeq Acc Id: XP_038950362   ⟸   XM_039094434
- Peptide Label: isoform X3
RefSeq Acc Id: NP_001376154   ⟸   NM_001389225
RefSeq Acc Id: XP_038950363   ⟸   XM_039094435
- Peptide Label: isoform X17
RefSeq Acc Id: ENSRNOP00000084179   ⟸   ENSRNOT00000095730
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P27732-F1-model_v2 AlphaFold P27732 1-2203 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:70973 AgrOrtholog
BioCyc Gene G2FUF-12204 BioCyc
Ensembl Genes ENSRNOG00000013147 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000041766 ENTREZGENE
  ENSRNOP00000041766.4 UniProtKB/TrEMBL
  ENSRNOP00000042492 ENTREZGENE
  ENSRNOP00000042492.5 UniProtKB/TrEMBL
  ENSRNOP00000043046 ENTREZGENE
  ENSRNOP00000043046.4 UniProtKB/TrEMBL
  ENSRNOP00000051407 ENTREZGENE
  ENSRNOP00000051407.4 UniProtKB/TrEMBL
  ENSRNOP00000084179 ENTREZGENE
  ENSRNOP00000084179.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000040759 ENTREZGENE
  ENSRNOT00000040759.5 UniProtKB/TrEMBL
  ENSRNOT00000047737 ENTREZGENE
  ENSRNOT00000047737.5 UniProtKB/TrEMBL
  ENSRNOT00000048459 ENTREZGENE
  ENSRNOT00000048459.5 UniProtKB/TrEMBL
  ENSRNOT00000051371 ENTREZGENE
  ENSRNOT00000051371.5 UniProtKB/TrEMBL
  ENSRNOT00000095730 ENTREZGENE
  ENSRNOT00000095730.1 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
  LVDCC_a1dsu UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VDCC_a1su_IQ 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
NCBI Gene 29716 ENTREZGENE
PANTHER VOLTAGE-DEPENDENT CALCIUM CHANNEL TYPE A SUBUNIT ALPHA-1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VOLTAGE-DEPENDENT L-TYPE CALCIUM CHANNEL SUBUNIT ALPHA-1D 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 Cacna1d PhenoGen
PRINTS CACHANNEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LVDCCALPHA1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LVDCCALPHA1D UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Ca_chan_IQ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Voltage-gated potassium channels UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZX89_RAT UniProtKB/TrEMBL
  CAC1D_RAT UniProtKB/Swiss-Prot
  E9PSN0_RAT UniProtKB/TrEMBL
  E9PT50_RAT UniProtKB/TrEMBL
  E9PTK1_RAT UniProtKB/TrEMBL
  F1LNB7_RAT UniProtKB/TrEMBL
  P27732 ENTREZGENE
UniProt Secondary O09022 UniProtKB/Swiss-Prot
  O09023 UniProtKB/Swiss-Prot
  O09024 UniProtKB/Swiss-Prot
  Q01542 UniProtKB/Swiss-Prot
  Q62691 UniProtKB/Swiss-Prot
  Q62815 UniProtKB/Swiss-Prot
  Q63491 UniProtKB/Swiss-Prot
  Q63492 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Cacna1d  calcium voltage-gated channel subunit alpha1 D  Cacna1d  calcium channel, voltage-dependent, L type, alpha 1D subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-07-09 Cacna1d  calcium channel, voltage-dependent, L type, alpha 1D subunit      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains QXXER motif of the C terminus is not sufficient to confer sensitivity to inhibitory G proteins 628461
gene_expression expressed in brain and neuroendocrine GH3 cells 628461
gene_function voltage-activated Ca2+ channel 628461
gene_function alpha 1 subunit is the main component of the Ca2+ channel 628461
gene_process mediates parathyroid hormone induction of increase in intracellular calcium 634679
gene_process may mediate hormone release in pituitary and pancreatic neuroendocrine cells 628461
gene_protein neuroendocrine isoform of pore forming subunit of L-type calcium channel 634679
gene_protein alpha 1 subunit is the main component of the Ca2+ channel  
gene_regulation channel activity is inhibited by activation of somatostatin and muscarinic receptors in the growth hormone- and prolactin-secreting anterior pituitary GH3 cell line 628461