Scn5a (sodium voltage-gated channel alpha subunit 5) - Rat Genome Database

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Gene: Scn5a (sodium voltage-gated channel alpha subunit 5) Rattus norvegicus
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Symbol: Scn5a
Name: sodium voltage-gated channel alpha subunit 5
RGD ID: 3637
Description: Enables ankyrin binding activity; fibroblast growth factor binding activity; and voltage-gated sodium channel activity involved in cardiac muscle cell action potential. Involved in several processes, including brain development; response to denervation involved in regulation of muscle adaptation; and sodium ion import across plasma membrane. Located in T-tubule and intercalated disc. Biomarker of brain ischemia and congestive heart failure. Human ortholog(s) of this gene implicated in heart conduction disease (multiple); intrinsic cardiomyopathy (multiple); and sudden infant death syndrome. Orthologous to human SCN5A (sodium voltage-gated channel alpha subunit 5); PARTICIPATES IN acebutolol pharmacodynamics pathway; adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway; amiodarone pharmacodynamics pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Nav1.5; SCAL; sodium channel protein cardiac muscle subunit alpha; sodium channel protein type 5 subunit alpha; sodium channel protein type V subunit alpha; sodium channel, voltage-gated, type 5, alpha subunit; sodium channel, voltage-gated, type V, alpha; sodium channel, voltage-gated, type V, alpha polypeptide; sodium channel, voltage-gated, type V, alpha subunit; voltage-gated sodium channel Nav1.5c; voltage-gated sodium channel subunit alpha Nav1.5
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Scn5aem2Mcwi  
Genetic Models: DA-Scn5aem2Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28119,220,905 - 119,318,816 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl8119,220,905 - 119,318,769 (-)Ensembl
Rnor_6.08128,169,191 - 128,266,681 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8128,169,191 - 128,266,639 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08127,375,781 - 127,471,879 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48124,446,479 - 124,545,301 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18124,467,115 - 124,565,038 (-)NCBI
Celera8118,371,960 - 118,468,948 (-)NCBICelera
RH 3.4 Map81282.5RGD
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
arrhythmogenic right ventricular cardiomyopathy  (ISO)
atrial fibrillation  (ISO)
atrial standstill 1  (ISO)
atrioventricular block  (ISO)
brain ischemia  (IEP)
Brugada syndrome  (ISO)
Brugada syndrome 1  (ISO)
cardiac arrest  (ISO)
Cardiac Arrhythmias  (ISO)
Cardiac Conduction Defect  (ISO)
Cardiac Conduction Defect, Nonprogressive  (ISO)
Cardiac Conduction Defect, Nonspecific  (ISO)
cardiomyopathy  (ISO)
catecholaminergic polymorphic ventricular tachycardia  (ISO)
catecholaminergic polymorphic ventricular tachycardia 1  (ISO)
congestive heart failure  (IEP)
Death  (ISO)
dilated cardiomyopathy  (ISO)
dilated cardiomyopathy 1A  (ISO)
dilated cardiomyopathy 1B  (ISO)
dilated cardiomyopathy 1E  (ISO)
Dilated Cardiomyopathy with Left Ventricular Noncompaction  (ISO)
familial atrial fibrillation  (ISS)
Familial Atrial Fibrillation 10  (ISO)
familial hypertrophic cardiomyopathy  (ISO)
fetal akinesia deformation sequence syndrome 1  (ISO)
genetic disease  (ISO)
Heart Block  (ISO)
hemiplegia  (ISO)
hereditary sensory and autonomic neuropathy type 7  (ISO)
hypertrophic cardiomyopathy  (ISO)
hypertrophic cardiomyopathy 1  (ISO)
Infant Death  (ISO)
left ventricular noncompaction  (ISO)
Left Ventricular Noncompaction 1  (ISO)
long QT syndrome  (ISO)
long QT syndrome 1  (ISO)
long QT syndrome 2  (ISO)
Long QT Syndrome 2/3  (ISO)
long QT syndrome 3  (ISO)
Long QT Syndrome 3/6  (ISO)
migraine  (ISO)
Nonprogressive Heart Block  (ISO)
Paroxysmal Ventricular Fibrillation  (ISO)
progressive familial heart block  (ISO)
Progressive Familial Heart Block Type I  (ISO)
progressive familial heart block type IA  (ISO)
Romano-Ward Syndrome  (ISO)
sick sinus syndrome  (ISO,ISS)
Sick Sinus Syndrome 1, Autosomal Recessive  (ISO)
Sudden Cardiac Death  (ISO)
Sudden Death  (ISO)
sudden infant death syndrome  (ISO)
Sudden Unexpected Nocturnal Death Syndrome  (ISO)
Syncope  (ISO)
Torsades de Pointes  (ISO)
Ventricular Fibrillation  (ISO)
Ventricular Fibrillation, Paroxysmal Familial, 1  (ISO)
Ventricular Tachycardia  (ISO)
Visceral Heterotaxy 4, Autosomal  (ISO)
Wolff-Parkinson-White syndrome  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-amino-5-chloro-N-[1-[3-(4-fluorophenoxy)propyl]-3-methoxy-4-piperidinyl]-2-methoxybenzamide  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
9-phenanthrol  (ISO)
Aflatoxin B2 alpha  (ISO)
ajmaline  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
brompheniramine  (ISO)
butanal  (ISO)
cannabidiol  (ISO)
chloroform  (ISO)
choline  (ISO)
cisapride  (ISO)
crizotinib  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
daunorubicin  (ISO)
diclofenac  (ISO)
doxorubicin  (EXP,ISO)
endosulfan  (EXP)
ethanol  (ISO)
ezogabine  (ISO)
flecainide  (ISO)
fluorescein 5-isothiocyanate  (ISO)
fluvoxamine  (ISO)
folic acid  (ISO)
furan  (EXP)
gentamycin  (EXP)
ibogaine  (ISO)
icajine  (ISO)
isoprenaline  (EXP)
L-methionine  (ISO)
lidocaine  (ISO)
limonene  (ISO)
lithium chloride  (ISO)
manganese(II) chloride  (EXP)
meloxicam  (ISO)
methamphetamine  (ISO)
mexiletine  (ISO)
mitoxantrone  (ISO)
N,N-diethyl-m-toluamide  (EXP)
nefazodone  (ISO)
nifedipine  (EXP)
nimesulide  (ISO)
paracetamol  (EXP)
paraquat  (EXP)
pentanal  (ISO)
permethrin  (EXP)
piroxicam  (ISO)
quercetin  (ISO)
quinidine  (ISO)
ranolazine  (ISO)
resveratrol  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium atom  (EXP)
strychnine  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
telmisartan  (ISO)
tetrodotoxin  (EXP)
titanium dioxide  (ISO)
tributylstannane  (EXP)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
action potential  (IEA)
atrial cardiac muscle cell action potential  (ISO,ISS)
AV node cell action potential  (IBA,ISO,ISS)
AV node cell to bundle of His cell communication  (ISO,ISS)
brainstem development  (IEP)
bundle of His cell action potential  (ISO,ISS)
calcium ion homeostasis  (ISO)
cardiac muscle cell action potential involved in contraction  (ISO,ISS)
cardiac muscle contraction  (ISO,ISS)
cardiac ventricle development  (ISO)
cell communication involved in cardiac conduction  (ISO)
cellular response to calcium ion  (IEA,ISO,ISS)
cerebellum development  (IEP)
establishment of localization in cell  (ISO)
membrane depolarization  (ISO,ISS)
membrane depolarization during action potential  (IBA,ISO,ISS)
membrane depolarization during atrial cardiac muscle cell action potential  (IEA,ISO)
membrane depolarization during AV node cell action potential  (IEA,ISO,ISS)
membrane depolarization during bundle of His cell action potential  (IEA,ISO,ISS)
membrane depolarization during cardiac muscle cell action potential  (IMP,ISO,ISS)
membrane depolarization during Purkinje myocyte cell action potential  (IEA,ISO,ISS)
membrane depolarization during SA node cell action potential  (IEA,ISO,ISS)
muscle cell cellular homeostasis  (ISO)
neuronal action potential  (IBA)
odontogenesis of dentin-containing tooth  (IEP)
positive regulation of action potential  (IMP)
positive regulation of epithelial cell proliferation  (IMP)
positive regulation of heart rate  (IMP)
positive regulation of sodium ion transport  (IEA,ISO,ISS)
regulation of atrial cardiac muscle cell membrane depolarization  (IBA,IEA,ISO,ISS)
regulation of atrial cardiac muscle cell membrane repolarization  (IEA,ISO,ISS)
regulation of cardiac muscle cell contraction  (IEA,ISO,ISS)
regulation of heart rate  (IBA,ISO,ISS)
regulation of heart rate by cardiac conduction  (IEA,ISO,ISS)
regulation of ion transmembrane transport  (IEA)
regulation of sodium ion transmembrane transport  (IEA,ISO,ISS)
regulation of ventricular cardiac muscle cell membrane depolarization  (IEA,ISO,ISS)
regulation of ventricular cardiac muscle cell membrane repolarization  (IEA,ISO,ISS)
response to denervation involved in regulation of muscle adaptation  (IMP)
response to organic cyclic compound  (ISO)
SA node cell action potential  (ISO,ISS)
sodium ion import across plasma membrane  (IMP,ISO)
sodium ion transmembrane transport  (IBA,IEA,IMP,ISO,ISS)
sodium ion transport  (ISO,ISS)
telencephalon development  (IEP)
ventricular cardiac muscle cell action potential  (IEA,ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
acebutolol pharmacodynamics pathway  (ISO)
adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway  (ISO)
amiodarone pharmacodynamics pathway  (ISO)
amlodipine pharmacodynamics pathway  (ISO)
atenolol pharmacodynamics pathway  (ISO)
betaxolol pharmacodynamics pathway  (ISO)
bisoprolol pharmacodynamics pathway  (ISO)
bupranolol drug pathway  (ISO)
bupranolol pharmacodynamics pathway  (ISO)
calcium/calmodulin dependent kinase 2 signaling pathway  (ISO)
carvedilol pharmacodynamics pathway  (ISO)
diltiazem pharmacodynamics pathway  (ISO)
disopyramide pharmacodynamics pathway  (ISO)
dobutamine pharmacodynamics pathway  (ISO)
esmolol pharmacodynamics pathway  (ISO)
flecainde pharmacodynamics pathway  (ISO)
fosphenytoin pharmacodynamics pathway  (ISO)
fosphenytoin pharmacokinetics pathway  (ISO)
ibutilide pharmacodynamics pathway  (ISO)
isoprenaline pharmacodynamics pathway  (ISO)
isradipine pharmacodynamics pathway  (ISO)
levobunolol pharmacodynamics pathway  (ISO)
lidocaine pharmacodynamics pathway  (ISO)
metoprolol pharmacodynamics pathway  (ISO)
mexiletine pharmacodynamics pathway  (ISO)
nadolol pharmacodynamics pathway  (ISO)
nebivolol pharmacodynamics pathway  (ISO)
nifedipine pharmacodynamics pathway  (ISO)
nimodipine pharmacodynamics pathway  (ISO)
nisoldipine pharmacodynamics pathway  (ISO)
nitrendipine pharmacodynamics pathway  (ISO)
penbutolol pharmacodynamics pathway  (ISO)
phenytoin pharmacodynamics pathway  (ISO)
pindolol pharmacodynamics pathway  (ISO)
procainamide pharmacodynamics pathway  (ISO)
propranolol pharmacodynamics pathway  (ISO)
quinidine pharmacodynamics pathway  (ISO)
sotalol pharmacodynamics pathway  (ISO)
timolol pharmacodynamics pathway  (ISO)
verapamil pharmacodynamics pathway  (ISO)

References

References - curated
1. Baroudi G, etal., Circ Res 2002 Jan 11;90(1):E11-6.
2. Byers MR and Westenbroek RE, Arch Oral Biol. 2011 Nov;56(11):1199-220.
3. Dhar Malhotra J, etal., Circulation. 2001 Mar 6;103(9):1303-10.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. GOA data from the GO Consortium
6. Huang X, etal., Nan Fang Yi Ke Da Xue Xue Bao. 2007 Jan;27(1):52-5.
7. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
8. Liu CJ, etal., J Biol Chem. 2003 Jan 10;278(2):1029-36. Epub 2002 Oct 24.
9. Lowe JS, etal., J Cell Biol. 2008 Jan 14;180(1):173-86. Epub 2008 Jan 7.
10. Makita N, etal., Circulation 2002 Sep 3;106(10):1269-74.
11. MGD data from the GO Consortium
12. Mohler PJ, etal., Proc Natl Acad Sci U S A. 2004 Dec 14;101(50):17533-8. Epub 2004 Dec 3.
13. NCBI rat LocusLink and RefSeq merged data July 26, 2002
14. Noorman M, etal., Heart Rhythm. 2013 Mar;10(3):412-9. doi: 10.1016/j.hrthm.2012.11.018. Epub 2012 Nov 23.
15. OMIM Disease Annotation Pipeline
16. Pipeline to import SMPDB annotations from SMPDB into RGD
17. Ren CT, etal., Mol Cell Biochem. 2012 Jun;365(1-2):139-48. Epub 2012 Feb 14.
18. RGD automated data pipeline
19. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
20. RGD automated import pipeline for gene-chemical interactions
21. Rogart RB, etal., Proc Natl Acad Sci U S A 1989 Oct;86(20):8170-4.
22. Rokita AG and Anderson ME, Circulation. 2012 Oct 23;126(17):2125-39. doi: 10.1161/CIRCULATIONAHA.112.124990.
23. Sato PY, etal., Circ Res. 2009 Sep 11;105(6):523-6. Epub 2009 Aug 6.
24. Sekiguchi K, etal., Clin Neurophysiol. 2012 Feb 13.
25. Sha Q, etal., J Physiol. 2003 Mar 1;547(Pt 2):435-40. Epub 2003 Jan 24.
26. Tester DJ, etal., Heart Rhythm. 2005 May;2(5):507-17.
27. Wang L, etal., Cell Physiol Biochem. 2009;23(4-6):305-16. Epub 2009 May 6.
28. Wu WK, etal., J Cell Physiol. 2006 May;207(2):437-44.
29. Xi Y, etal., Eur J Heart Fail. 2009 Aug;11(8):749-57. Epub 2009 Jul 7.
30. Zhang X, etal., J Clin Invest. 2018 Mar 1;128(3):1154-1163. doi: 10.1172/JCI95710. Epub 2018 Feb 19.
31. Zhu W, etal., Circ Res. 2018 Dec 18. doi: 10.1161/CIRCRESAHA.118.314050.
Additional References at PubMed
PMID:7889574   PMID:8889548   PMID:10471492   PMID:11834499   PMID:11972032   PMID:14500339   PMID:15047701   PMID:15217910   PMID:15272007   PMID:15746173   PMID:15809371   PMID:15932895  
PMID:16115203   PMID:16172272   PMID:16728661   PMID:16966585   PMID:17060380   PMID:17592081   PMID:17884088   PMID:17900547   PMID:18032528   PMID:18065446   PMID:18178574   PMID:18184654  
PMID:18591664   PMID:18616619   PMID:19074138   PMID:19167345   PMID:19376164   PMID:19666841   PMID:19745168   PMID:19808477   PMID:19943616   PMID:20042427   PMID:20517693   PMID:20724705  
PMID:20877009   PMID:21051419   PMID:21164104   PMID:21167176   PMID:21677263   PMID:21817159   PMID:21895525   PMID:22247482   PMID:22514276   PMID:22529811   PMID:22766342   PMID:22811280  
PMID:23085483   PMID:23420830   PMID:23684688   PMID:24998131   PMID:25850710   PMID:26059563   PMID:26067667   PMID:26187182   PMID:26279430   PMID:26392562   PMID:26459913   PMID:26786162  
PMID:27861438   PMID:28205593   PMID:29184507   PMID:29393394   PMID:29514831   PMID:30506890   PMID:30772377   PMID:30860472   PMID:32046907   PMID:33145656   PMID:33397917   PMID:33803193  
PMID:34520724  


Genomics

Comparative Map Data
Scn5a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28119,220,905 - 119,318,816 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl8119,220,905 - 119,318,769 (-)Ensembl
Rnor_6.08128,169,191 - 128,266,681 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8128,169,191 - 128,266,639 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08127,375,781 - 127,471,879 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48124,446,479 - 124,545,301 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18124,467,115 - 124,565,038 (-)NCBI
Celera8118,371,960 - 118,468,948 (-)NCBICelera
RH 3.4 Map81282.5RGD
Cytogenetic Map8q32NCBI
SCN5A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38338,548,062 - 38,649,687 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl338,548,057 - 38,649,687 (-)EnsemblGRCh38hg38GRCh38
GRCh37338,589,553 - 38,691,178 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36338,564,557 - 38,666,167 (-)NCBINCBI36hg18NCBI36
Build 34338,564,557 - 38,666,167NCBI
Cytogenetic Map3p22.2NCBI
HuRef338,631,798 - 38,733,467 (-)NCBIHuRef
CHM1_1338,541,190 - 38,642,759 (-)NCBICHM1_1
Scn5a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399119,312,470 - 119,408,096 (-)NCBIGRCm39mm39
GRCm39 Ensembl9119,312,474 - 119,408,082 (-)Ensembl
GRCm389119,483,404 - 119,579,030 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9119,483,408 - 119,579,016 (-)EnsemblGRCm38mm10GRCm38
MGSCv379119,392,529 - 119,488,134 (-)NCBIGRCm37mm9NCBIm37
MGSCv369119,332,109 - 119,427,714 (-)NCBImm8
Celera9119,954,231 - 120,036,580 (-)NCBICelera
Cytogenetic Map9F3NCBI
cM Map971.33NCBI
Scn5a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542725,295,514 - 25,371,552 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542725,295,517 - 25,371,419 (+)NCBIChiLan1.0ChiLan1.0
SCN5A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1338,726,612 - 38,825,308 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl338,728,897 - 38,812,202 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0338,444,421 - 38,546,364 (-)NCBIMhudiblu_PPA_v0panPan3
SCN5A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1238,278,844 - 8,374,614 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl238,280,793 - 8,358,560 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha238,320,845 - 8,398,617 (-)NCBI
ROS_Cfam_1.0238,569,755 - 8,663,508 (-)NCBI
ROS_Cfam_1.0 Ensembl238,567,803 - 8,663,608 (-)Ensembl
UMICH_Zoey_3.1238,383,566 - 8,461,346 (-)NCBI
UNSW_CanFamBas_1.0238,524,281 - 8,602,312 (-)NCBI
UU_Cfam_GSD_1.0238,517,525 - 8,595,709 (-)NCBI
Scn5a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118194,744,951 - 194,825,418 (-)NCBI
SpeTri2.0NW_00493647327,883,526 - 27,963,994 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SCN5A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1323,338,124 - 23,438,385 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11323,336,143 - 23,424,755 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21325,515,907 - 25,618,584 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SCN5A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.115767,854 - 869,787 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl15794,963 - 867,457 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660639,497,334 - 9,599,195 (+)NCBIVero_WHO_p1.0
Scn5a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247312,401,358 - 2,498,212 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D8Wox12  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28119,320,010 - 119,320,263 (+)MAPPERmRatBN7.2
Rnor_6.08128,267,881 - 128,268,133NCBIRnor6.0
Rnor_5.08127,473,010 - 127,473,262UniSTSRnor5.0
RGSC_v3.48124,546,794 - 124,547,046UniSTSRGSC3.4
Celera8118,470,158 - 118,470,408UniSTS
Cytogenetic Map8q32UniSTS
BI294104  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28119,253,576 - 119,253,781 (+)MAPPERmRatBN7.2
Rnor_6.08128,202,003 - 128,202,207NCBIRnor6.0
Rnor_5.08127,408,448 - 127,408,652UniSTSRnor5.0
RGSC_v3.48124,478,999 - 124,479,203UniSTSRGSC3.4
Celera8118,404,536 - 118,404,740UniSTS
RH 3.4 Map81312.3UniSTS
Cytogenetic Map8q32UniSTS
RH94513  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28119,221,808 - 119,221,985 (+)MAPPERmRatBN7.2
Rnor_6.08128,170,094 - 128,170,270NCBIRnor6.0
Rnor_5.08127,376,684 - 127,376,860UniSTSRnor5.0
RGSC_v3.48124,447,382 - 124,447,558UniSTSRGSC3.4
Celera8118,372,863 - 118,373,039UniSTS
RH 3.4 Map81282.5UniSTS
Cytogenetic Map8q32UniSTS
Scn3a  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2350,432,608 - 50,433,887 (+)MAPPERmRatBN7.2
Rnor_6.0351,817,586 - 51,818,864NCBIRnor6.0
Rnor_5.0358,452,236 - 58,453,514UniSTSRnor5.0
RGSC_v3.4347,718,197 - 47,719,475UniSTSRGSC3.4
Celera350,025,799 - 50,027,077UniSTS
Cytogenetic Map7q36UniSTS
Cytogenetic Map3q21UniSTS
Cytogenetic Map8q32UniSTS
Cytogenetic Map3q24UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat


Genetic Models
This gene Scn5a is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:884
Count of miRNA genes:249
Interacting mature miRNAs:318
Transcripts:ENSRNOT00000064555, ENSRNOT00000066932
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.


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 43
Low 1 4 2 4 2 1 1 60 14 10 1
Below cutoff 2 51 37 15 37 7 10 14 27 27 1 7

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001160162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_013125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006244076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595481 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595482 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080899 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080900 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080901 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC094738 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF353637 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ623272 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CV796639 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FM058340 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L11243 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M27902 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000064555   ⟹   ENSRNOP00000060180
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8119,220,905 - 119,318,769 (-)Ensembl
Rnor_6.0 Ensembl8128,169,191 - 128,266,639 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000066932   ⟹   ENSRNOP00000060586
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8119,220,905 - 119,318,769 (-)Ensembl
Rnor_6.0 Ensembl8128,169,191 - 128,266,639 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000082892   ⟹   ENSRNOP00000069875
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8119,220,905 - 119,318,769 (-)Ensembl
Rnor_6.0 Ensembl8128,171,379 - 128,249,538 (-)Ensembl
RefSeq Acc Id: NM_001160162   ⟹   NP_001153634
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28119,220,905 - 119,318,769 (-)NCBI
Rnor_6.08128,169,191 - 128,266,639 (-)NCBI
Rnor_5.08127,375,781 - 127,471,879 (-)NCBI
RGSC_v3.48124,446,479 - 124,545,301 (-)RGD
Celera8118,371,960 - 118,468,948 (-)RGD
Sequence:
RefSeq Acc Id: NM_013125   ⟹   NP_037257
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28119,220,905 - 119,318,769 (-)NCBI
Rnor_6.08128,169,191 - 128,266,639 (-)NCBI
Rnor_5.08127,375,781 - 127,471,879 (-)NCBI
RGSC_v3.48124,446,479 - 124,545,301 (-)RGD
Celera8118,371,960 - 118,468,948 (-)RGD
Sequence:
RefSeq Acc Id: XM_017595481   ⟹   XP_017450970
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28119,220,905 - 119,318,815 (-)NCBI
Rnor_6.08128,169,191 - 128,266,681 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039080899   ⟹   XP_038936827
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28119,220,905 - 119,318,815 (-)NCBI
RefSeq Acc Id: XM_039080900   ⟹   XP_038936828
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28119,220,905 - 119,318,816 (-)NCBI
RefSeq Acc Id: XM_039080901   ⟹   XP_038936829
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28119,220,905 - 119,318,815 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_037257   ⟸   NM_013125
- Peptide Label: isoform 1
- Sequence:
RefSeq Acc Id: NP_001153634   ⟸   NM_001160162
- Peptide Label: isoform 2
- Sequence:
RefSeq Acc Id: XP_017450970   ⟸   XM_017595481
- Peptide Label: isoform X3
- UniProtKB: A0A0G2JWG8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000069875   ⟸   ENSRNOT00000082892
RefSeq Acc Id: ENSRNOP00000060586   ⟸   ENSRNOT00000066932
RefSeq Acc Id: ENSRNOP00000060180   ⟸   ENSRNOT00000064555
RefSeq Acc Id: XP_038936828   ⟸   XM_039080900
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038936827   ⟸   XM_039080899
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936829   ⟸   XM_039080901
- Peptide Label: isoform X4
Protein Domains
Ion_trans   IQ   Na_trans_assoc   Na_trans_cytopl

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P15389-F1-model_v2 AlphaFold P15389 1-2019 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3637 AgrOrtholog
BioCyc Gene G2FUF-28785 BioCyc
Ensembl Genes ENSRNOG00000015049 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000060180 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000060586 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000069875 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000064555 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000066932 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000082892 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.20.120.350 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Ion_trans_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na_channel_a5su UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na_channel_asu UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na_chnl_inactivation_gate UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na_trans_assoc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na_trans_cytopl UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VGCC_Ca_Na UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Volt_channel_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25665 UniProtKB/Swiss-Prot
NCBI Gene 25665 ENTREZGENE
PANTHER PTHR10037 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Ion_trans UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na_trans_assoc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na_trans_cytopl UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB SCN5A RGD
PhenoGen Scn5a PhenoGen
PRINTS NACHANNEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NACHANNEL5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JWG8 ENTREZGENE, UniProtKB/TrEMBL
  A4ZYR8_RAT UniProtKB/TrEMBL
  F1LNF5_RAT UniProtKB/TrEMBL
  F1LPK3_RAT UniProtKB/TrEMBL
  P15389 ENTREZGENE
  Q6EWG5_RAT UniProtKB/TrEMBL
  SCN5A_RAT UniProtKB/Swiss-Prot
UniProt Secondary Q925G6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Scn5a  sodium voltage-gated channel alpha subunit 5  Scn5a  sodium channel, voltage-gated, type V, alpha subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-09-16 Scn5a  sodium channel, voltage-gated, type V, alpha subunit  Scn5a  sodium channel, voltage-gated, type V, alpha  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-12-15 Scn5a  sodium channel, voltage-gated, type V, alpha  Scn5a  sodium channel, voltage-gated, type V, alpha subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-05-18 Scn5a  sodium channel, voltage-gated, type V, alpha subunit  Scn5a  sodium channel, voltage-gated, type 5, alpha subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-15 Scn5a  sodium channel, voltage-gated, type 5, alpha subunit  Scn5a  sodium channel, voltage-gated, type V, alpha polypeptide  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Scn5a  Sodium channel, voltage-gated, type V, alpha polypeptide      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease mutation of the human homolog cause Brugada syndrome, a cardiac disorder that leads to ventricular fibrillation and sudden death 735235