Scn4a (sodium voltage-gated channel alpha subunit 4) - Rat Genome Database

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Gene: Scn4a (sodium voltage-gated channel alpha subunit 4) Rattus norvegicus
Analyze
Symbol: Scn4a
Name: sodium voltage-gated channel alpha subunit 4
RGD ID: 3636
Description: Predicted to enable voltage-gated sodium channel activity. Involved in choline transport; potassium ion transport; and sodium ion transmembrane transport. Located in plasma membrane. Human ortholog(s) of this gene implicated in congenital myasthenic syndrome 16; congenital myopathy 22A; congenital myopathy 22B; hyperkalemic periodic paralysis; and paramyotonia congenita of Von Eulenburg. Orthologous to human SCN4A (sodium voltage-gated channel alpha subunit 4); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: microI; mu-1; Nav1.4; NCHVS; skM1; sodium channel protein skeletal muscle subunit alpha; sodium channel protein type 4 subunit alpha; sodium channel protein type IV subunit alpha; sodium channel voltage-gated type 4 alpha polypeptide; Sodium channel voltage-gated type IV alpha polypeptide; sodium channel, voltage-gated, type 4, alpha polypeptide; sodium channel, voltage-gated, type 4, alpha subunit; sodium channel, voltage-gated, type IV, alpha; Sodium channel, voltage-gated, type IV, alpha polypeptide; sodium channel, voltage-gated, type IV, alpha subunit; voltage-gated sodium channel subunit alpha Nav1.4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81091,745,459 - 91,796,452 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1091,746,715 - 91,796,324 (-)EnsemblGRCr8
mRatBN7.21091,246,936 - 91,296,670 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1091,246,936 - 91,296,545 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1096,301,564 - 96,351,302 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01095,764,729 - 95,814,463 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01091,175,309 - 91,225,142 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01094,505,026 - 94,557,803 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1094,505,026 - 94,557,764 (-)Ensemblrn6Rnor6.0
Rnor_5.01094,256,140 - 94,305,964 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41095,710,710 - 95,760,323 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1089,922,418 - 89,970,101 (-)NCBICelera
RGSC_v3.11095,725,079 - 95,774,693 (-)NCBI
RH 3.4 Map10988.7RGD
Cytogenetic Map10q32.1NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Late onset painful cold-aggravated myotonia: three families with SCN4A L1436P mutation. Bissay V, etal., Neuromuscul Disord. 2011 Aug;21(8):590-3. doi: 10.1016/j.nmd.2011.05.006. Epub 2011 Jun 12.
2. Severe infantile hyperkalaemic periodic paralysis and paramyotonia congenita: broadening the clinical spectrum associated with the T704M mutation in SCN4A. Brancati F, etal., J Neurol Neurosurg Psychiatry. 2003 Sep;74(9):1339-41.
3. Expression of skeletal muscle-type voltage-gated Na+ channel in rat and human prostate cancer cell lines. Diss JK, etal., FEBS Lett 1998 May 1;427(1):5-10.
4. 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.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. 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
7. Thyrotoxic periodic paralysis associated with a mutation in the sodium channel gene SCN4A. Lane AH, etal., J Pediatr Endocrinol Metab. 2004 Dec;17(12):1679-82.
8. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
9. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
10. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
11. GOA pipeline RGD automated data pipeline
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
15. Primary structure and functional expression of a mammalian skeletal muscle sodium channel. Trimmer JS, etal., Neuron 1989 Jul;3(1):33-49.
16. Genetic basis of tetrodotoxin resistance in pufferfishes. Venkatesh B, etal., Curr Biol. 2005 Nov 22;15(22):2069-72. doi: 10.1016/j.cub.2005.10.068.
17. A sodium channel knockin mutant (NaV1.4-R669H) mouse model of hypokalemic periodic paralysis. Wu F, etal., J Clin Invest. 2011 Oct;121(10):4082-94. doi: 10.1172/JCI57398. Epub 2011 Sep 1.
18. A molecular switch between the outer and the inner vestibules of the voltage-gated Na+ channel. Zarrabi T, etal., J Biol Chem. 2010 Dec 10;285(50):39458-70. doi: 10.1074/jbc.M110.132886. Epub 2010 Oct 6.
Additional References at PubMed
PMID:9525869   PMID:11834499   PMID:12397382   PMID:12766226   PMID:12967988   PMID:15746172   PMID:15992775   PMID:16239540   PMID:16432696   PMID:16873405   PMID:17237232   PMID:17591984  
PMID:17698594   PMID:18698149   PMID:18824591   PMID:18977767   PMID:19052238   PMID:19097141   PMID:20459109   PMID:20660662   PMID:21099342   PMID:22374989   PMID:22722661   PMID:23322038  
PMID:25133704   PMID:26636939   PMID:28012039   PMID:28202723   PMID:30190309  


Genomics

Comparative Map Data
Scn4a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81091,745,459 - 91,796,452 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1091,746,715 - 91,796,324 (-)EnsemblGRCr8
mRatBN7.21091,246,936 - 91,296,670 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1091,246,936 - 91,296,545 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1096,301,564 - 96,351,302 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01095,764,729 - 95,814,463 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01091,175,309 - 91,225,142 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01094,505,026 - 94,557,803 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1094,505,026 - 94,557,764 (-)Ensemblrn6Rnor6.0
Rnor_5.01094,256,140 - 94,305,964 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41095,710,710 - 95,760,323 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1089,922,418 - 89,970,101 (-)NCBICelera
RGSC_v3.11095,725,079 - 95,774,693 (-)NCBI
RH 3.4 Map10988.7RGD
Cytogenetic Map10q32.1NCBI
SCN4A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381763,938,554 - 63,972,918 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1763,938,554 - 63,972,918 (-)Ensemblhg38GRCh38
GRCh371762,015,914 - 62,050,278 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361759,369,646 - 59,404,010 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341759,369,645 - 59,404,010NCBI
Celera1756,403,975 - 56,438,354 (-)NCBICelera
Cytogenetic Map17q23.3NCBI
HuRef1757,383,629 - 57,417,946 (-)NCBIHuRef
CHM1_11762,079,833 - 62,114,196 (-)NCBICHM1_1
T2T-CHM13v2.01764,809,317 - 64,843,693 (-)NCBIT2T-CHM13v2.0
Scn4a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911106,208,374 - 106,256,385 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11106,209,418 - 106,244,114 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm3811106,317,545 - 106,365,559 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11106,318,592 - 106,353,288 (-)Ensemblmm10GRCm38
MGSCv3711106,179,907 - 106,210,704 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3611106,135,394 - 106,165,480 (-)NCBIMGSCv36mm8
Celera11118,049,260 - 118,080,125 (-)NCBICelera
Cytogenetic Map11E1NCBI
cM Map1168.91NCBI
Scn4a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554787,861,585 - 7,906,192 (+)Ensembl
ChiLan1.0NW_0049554787,861,585 - 7,906,192 (+)NCBIChiLan1.0ChiLan1.0
SCN4A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21980,119,592 - 80,155,917 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11784,939,899 - 84,975,867 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01758,034,146 - 58,066,644 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11763,128,550 - 63,161,043 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1763,128,550 - 63,161,043 (-)EnsemblpanPan2panpan1.1
SCN4A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1911,849,066 - 11,893,689 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl911,851,347 - 11,877,767 (-)EnsemblcanFam3CanFam3.1
ROS_Cfam_1.0913,510,606 - 13,554,819 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl913,510,606 - 13,539,011 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1912,457,351 - 12,500,840 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0915,030,745 - 15,074,957 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0915,032,962 - 15,077,426 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Scn4a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560214,610,329 - 14,653,543 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365414,543,102 - 4,569,862 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365414,541,061 - 4,570,212 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SCN4A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1215,002,175 - 15,047,582 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11215,001,356 - 15,048,092 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21214,992,881 - 15,039,475 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SCN4A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11657,273,143 - 57,331,677 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1657,282,252 - 57,331,035 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366607727,910,000 - 27,944,696 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Scn4a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248491,436,047 - 1,483,531 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248491,436,372 - 1,483,531 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Scn4a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1972,774,024 - 72,805,559 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Scn4a
301 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:134
Count of miRNA genes:97
Interacting mature miRNAs:113
Transcripts:ENSRNOT00000016841
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105107189796071897Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102702353598502431Rat
8657410Bp374Blood pressure QTL 374heart left ventricle size trait (VT:0002753)heart left ventricle end-diastolic diameter (CMO:0000982)1067476608107713808Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063719161107713808Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042546145107713808Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1058073360103073360Rat
12903252Cm113Cardiac mass QTL 1130.047heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)1066817119107713808Rat
1579915Bp280Blood pressure QTL 2800.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)109090424595604677Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)105429633699451733Rat
4889948Bss91Bone structure and strength QTL 914tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)108306123692869129Rat
1579919Bp281Blood pressure QTL 2810.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105046480295464802Rat
2298548Neuinf7Neuroinflammation QTL 73.4nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1064939013107713808Rat
1302404Cia27Collagen induced arthritis QTL 272.60.0045joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)1076951790107713808Rat
1300107Rf18Renal function QTL 183.41urine output (VT:0003620)timed urine volume (CMO:0000260)1079272424102982300Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104552916496099749Rat
70168Eae12Experimental allergic encephalomyelitis QTL 120.0009nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)1073599825107713808Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1054296227107713808Rat
10450495Bp383Blood pressure QTL 3830.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107674313395464802Rat
12903269Am15Aortic mass QTL 150.042aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)1066817119107713808Rat
10450493Bp382Blood pressure QTL 3820.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105086028895860288Rat
2313856Bp342Blood pressure QTL 3424.40.0001life span trait (VT:0005372)age at time of death (CMO:0001193)108780775896620484Rat
12903266Cm114Cardiac mass QTL 1140.02heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)1066817119107713808Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2292617Ept18Estrogen-induced pituitary tumorigenesis QTL 183.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107395035396620293Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1062556066107556066Rat
12880372Am12Aortic mass QTL 120.003aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)1066817119107713808Rat
70193Mcs7Mammary carcinoma susceptibility QTL 72.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1072724423107713808Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1062556066107556066Rat
12880375Kidm66Kidney mass QTL 660.009kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1066817119107713808Rat
61363Oia3Oil induced arthritis QTL 30.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1087807758107713808Rat
1357344Bp249Blood pressure QTL 2490.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106724133498502431Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014991535107556066Rat
12880370Cm105Cardiac mass QTL 1050.008heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)1066817119107713808Rat
12880371Cm106Cardiac mass QTL 1060.007heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)1066817119107713808Rat
2306970Anxrr22Anxiety related response QTL 225.95fear/anxiety-related behavior trait (VT:1000241)number of periods of voluntary immobility (CMO:0001045)106184349698710773Rat
724530Bp149Blood pressure QTL 1490.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)109112727095604677Rat
1300137Bp186Blood pressure QTL 1863.57arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1091127270107556066Rat
11565453Kidm58Kidney mass QTL 580.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1066817119107713808Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)107369533997272278Rat
7387312Bw125Body weight QTL 12530.0047retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight (CMO:0000356)1065390777107713808Rat
6893357Bw102Body weight QTL 1020.50.36body mass (VT:0001259)body weight (CMO:0000012)1081012077101828297Rat
12880384Cm107Cardiac mass QTL 1070.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)9090424595604677Rat
12880385Cm108Cardiac mass QTL 1080.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)9090424595604677Rat
12880396Am13Aortic mass QTL 130.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)109090424595604677Rat
2306793Ean5Experimental allergic neuritis QTL 54.7nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)107304965694495280Rat
12880398Kidm67Kidney mass QTL 670.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)109090424595604677Rat
2306792Ean4Experimental allergic neuritis QTL 44nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)104949549294495492Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1052269185107713808Rat
12880395Cm109Cardiac mass QTL 1090.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)109090424595604677Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068920187107713808Rat
1358915Stresp7Stress response QTL 73.52blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)1065307813107713808Rat
634320Niddm49Non-insulin dependent diabetes mellitus QTL 494.41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1089039175107713808Rat
70363Bp71Blood pressure QTL 710.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1061843496106843496Rat
70364Bp72Blood pressure QTL 72arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)108890050196620484Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1070698731107713808Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)102758722696099902Rat
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)105530797293608131Rat
1558643Cm44Cardiac mass QTL 444.80.0000368heart mass (VT:0007028)heart wet weight (CMO:0000069)1061843496100198886Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040535708107713808Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040535708107713808Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014991535107713808Rat
7207811Bmd90Bone mineral density QTL 905.2femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)104994371094943710Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040535708107713808Rat
1581559Eae18Experimental allergic encephalomyelitis QTL 180.00002nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1066108888107555881Rat
6893336Cm75Cardiac mass QTL 750.10.87heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1061843496100198886Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104786912992869129Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
12880055Am11Aortic mass QTL 110.004aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)108450348796432422Rat
2292438Bp311Blood pressure QTL 311arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107674313395604677Rat
2301398Kidm38Kidney mass QTL 380.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)108450348796432422Rat
2292436Bp310Blood pressure QTL 310arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105060467795604677Rat
1600367Mcs15Mammary carcinoma susceptibility QTL 154.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1072724423107713808Rat
1358188Ept9Estrogen-induced pituitary tumorigenesis QTL 93.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107395035396620293Rat
631537Oia4Oil induced arthritis QTL 4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1076128947107713808Rat
634354Rends3Renal damage susceptibility QTL 30.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)1061997479106997479Rat
61436Cia5Collagen induced arthritis QTL 54.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1091727883107713808Rat
2301405Cm69Cardiac mass QTL 690.031heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)1066817119107713808Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102702353599451848Rat

Markers in Region
D10Wox43  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21091,246,495 - 91,246,643 (+)MAPPERmRatBN7.2
Rnor_6.01094,504,586 - 94,504,733NCBIRnor6.0
Rnor_5.01094,255,796 - 94,255,943UniSTSRnor5.0
RGSC_v3.41095,710,270 - 95,710,417UniSTSRGSC3.4
Celera1089,921,978 - 89,922,125UniSTS
Cytogenetic Map10q32.1UniSTS
BE099716  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21091,277,612 - 91,277,767 (+)MAPPERmRatBN7.2
Rnor_6.01094,538,828 - 94,538,982NCBIRnor6.0
Rnor_5.01094,286,913 - 94,287,067UniSTSRnor5.0
RGSC_v3.41095,741,387 - 95,741,541UniSTSRGSC3.4
Celera1089,951,614 - 89,951,768UniSTS
RH 3.4 Map10981.4UniSTS
Cytogenetic Map10q32.1UniSTS
RH94568  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21091,246,961 - 91,247,113 (+)MAPPERmRatBN7.2
Rnor_6.01094,505,052 - 94,505,203NCBIRnor6.0
Rnor_5.01094,256,262 - 94,256,413UniSTSRnor5.0
RGSC_v3.41095,710,736 - 95,710,887UniSTSRGSC3.4
Celera1089,922,444 - 89,922,595UniSTS
RH 3.4 Map10988.7UniSTS
Cytogenetic Map10q32.1UniSTS
UniSTS:224857  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21091,247,409 - 91,247,480 (+)MAPPERmRatBN7.2
Rnor_6.01094,505,500 - 94,505,570NCBIRnor6.0
Rnor_5.01094,256,710 - 94,256,780UniSTSRnor5.0
RGSC_v3.41095,711,184 - 95,711,254UniSTSRGSC3.4
Celera1089,922,892 - 89,922,962UniSTS
Cytogenetic Map10q32.1UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
10 11 81 156 68 67 36 86 36 6 325 201 11 131 70 96 31 12 12

Sequence


Ensembl Acc Id: ENSRNOT00000016841   ⟹   ENSRNOP00000016841
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1091,746,715 - 91,796,324 (-)Ensembl
mRatBN7.2 Ensembl1091,246,936 - 91,296,545 (-)Ensembl
Rnor_6.0 Ensembl1094,505,026 - 94,557,764 (-)Ensembl
RefSeq Acc Id: NM_013178   ⟹   NP_037310
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81091,746,715 - 91,796,324 (-)NCBI
mRatBN7.21091,246,936 - 91,296,545 (-)NCBI
Rnor_6.01094,505,026 - 94,557,764 (-)NCBI
Rnor_5.01094,256,140 - 94,305,964 (-)NCBI
RGSC_v3.41095,710,710 - 95,760,323 (-)RGD
Celera1089,922,418 - 89,970,101 (-)RGD
Sequence:
RefSeq Acc Id: XM_006247559   ⟹   XP_006247621
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81091,745,459 - 91,796,452 (-)NCBI
mRatBN7.21091,247,923 - 91,296,670 (-)NCBI
Rnor_6.01094,506,013 - 94,557,803 (-)NCBI
Rnor_5.01094,256,140 - 94,305,964 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_037310 (Get FASTA)   NCBI Sequence Viewer  
  XP_006247621 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA41682 (Get FASTA)   NCBI Sequence Viewer  
  CAA76659 (Get FASTA)   NCBI Sequence Viewer  
  EDM06395 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000016841
GenBank Protein P15390 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_037310   ⟸   NM_013178
- UniProtKB: P15390 (UniProtKB/Swiss-Prot),   O70611 (UniProtKB/Swiss-Prot),   D3ZW75 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006247621   ⟸   XM_006247559
- Peptide Label: isoform X1
- UniProtKB: P15390 (UniProtKB/Swiss-Prot),   O70611 (UniProtKB/Swiss-Prot),   D3ZW75 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000016841   ⟸   ENSRNOT00000016841
Protein Domains
Ion transport   IQ   Sodium ion transport-associated

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P15390-F1-model_v2 AlphaFold P15390 1-1840 view protein structure

Transcriptome

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

Promoters
RGD ID:13697844
Promoter ID:EPDNEW_R8369
Type:single initiation site
Name:Scn4a_1
Description:sodium voltage-gated channel alpha subunit 4
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_6.01094,557,792 - 94,557,852EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3636 AgrOrtholog
BioCyc Gene G2FUF-22951 BioCyc
Ensembl Genes ENSRNOG00000012134 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000016841 ENTREZGENE
Gene3D-CATH 1.10.287.70 UniProtKB/Swiss-Prot
  1.20.120.350 UniProtKB/Swiss-Prot
  EF-hand UniProtKB/Swiss-Prot
  iswi atpase UniProtKB/Swiss-Prot
InterPro Ion_trans_dom UniProtKB/Swiss-Prot
  Na_channel_a4su_mammal UniProtKB/Swiss-Prot
  Na_channel_asu UniProtKB/Swiss-Prot
  Na_chnl_inactivation_gate UniProtKB/Swiss-Prot
  Na_trans_assoc UniProtKB/Swiss-Prot
  VGCC_Ca_Na UniProtKB/Swiss-Prot
  Volt_channel_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:25722 UniProtKB/Swiss-Prot
NCBI Gene 25722 ENTREZGENE
PANTHER PTHR10037 UniProtKB/Swiss-Prot
  SODIUM CHANNEL PROTEIN TYPE 4 SUBUNIT ALPHA UniProtKB/Swiss-Prot
Pfam Ion_trans UniProtKB/Swiss-Prot
  IQ_SCN5A_C UniProtKB/Swiss-Prot
  Na_trans_assoc UniProtKB/Swiss-Prot
PhenoGen Scn4a PhenoGen
PRINTS NACHANNEL UniProtKB/Swiss-Prot
  NACHANNEL4 UniProtKB/Swiss-Prot
PROSITE PS50096 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000012134 RatGTEx
Superfamily-SCOP Voltage-gated potassium channels UniProtKB/Swiss-Prot
TIGR TC220002
UniProt A6HK40_RAT UniProtKB/TrEMBL
  D3ZW75 ENTREZGENE, UniProtKB/TrEMBL
  O70611 ENTREZGENE
  P15390 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary O70611 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Scn4a  sodium voltage-gated channel alpha subunit 4  Scn4a  sodium channel, voltage-gated, type IV, alpha subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-09-16 Scn4a  sodium channel, voltage-gated, type IV, alpha subunit  Scn4a  sodium channel, voltage-gated, type IV, alpha  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-12-15 Scn4a  sodium channel, voltage-gated, type IV, alpha  Scn4a  sodium channel, voltage-gated, type IV, alpha subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-10-22 Scn4a  sodium channel, voltage-gated, type IV, alpha subunit  Scn4a  sodium channel, voltage-gated, type 4, alpha subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-15 Scn4a  sodium channel, voltage-gated, type 4, alpha subunit  Scn4a  sodium channel, voltage-gated, type IV, alpha polypeptide  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-26 Scn4a  sodium channel, voltage-gated, type IV, alpha polypeptide      Symbol and Name status set to approved 625702 APPROVED
2002-06-10 Scn4a  sodium channel, voltage-gated, type 4, alpha polypeptide       Name updated 70585 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression preferentially expressed in skeletal muscle 69983