Gene
Entrez ID Entrez Gene ID - the GENE ID in NCBI Gene database.
6328
Gene name Gene Name - the full gene name approved by the HGNC.
Sodium voltage-gated channel alpha subunit 3
Gene symbol Gene Symbol - the official gene symbol approved by the HGNC.
SCN3A
Synonyms (NCBI Gene) Gene synonyms aliases
DEE62, EIEE62, FFEVF4, NAC3, Nav1.3
Disease Acronyms (UniProt) Disease acronyms from UniProt database
DEE62, FFEVF4
Chromosome Chromosome number
2
Chromosome location Chromosomal Location - indicates the cytogenetic location of the gene or region on the chromosome.
2q24.3
Summary Summary of gene provided in NCBI Entrez Gene.
Voltage-gated sodium channels are transmembrane glycoprotein complexes composed of a large alpha subunit with 24 transmembrane domains and one or more regulatory beta subunits. They are responsible for the generation and propagation of action potentials i
SNPs SNP information provided by dbSNP.
SNP ID Visualize variation Clinical significance Consequence
rs76144052 A>G Conflicting-interpretations-of-pathogenicity Coding sequence variant, synonymous variant, missense variant
rs138331141 T>C Conflicting-interpretations-of-pathogenicity Coding sequence variant, missense variant
rs138766015 A>G Conflicting-interpretations-of-pathogenicity Genic downstream transcript variant, coding sequence variant, synonymous variant
rs139769668 C>A,T Conflicting-interpretations-of-pathogenicity 5 prime UTR variant, coding sequence variant, missense variant
rs143360102 G>C Conflicting-interpretations-of-pathogenicity Coding sequence variant, synonymous variant
miRNA miRNA information provided by mirtarbase database.
miRTarBase ID miRNA Experiments Reference
MIRT018072 hsa-miR-335-5p Microarray 18185580
MIRT022759 hsa-miR-124-3p Microarray 18668037
MIRT023856 hsa-miR-1-3p Microarray 18668037
MIRT1329958 hsa-miR-1179 CLIP-seq
MIRT1329959 hsa-miR-1183 CLIP-seq
Gene ontology (GO) Gene ontology information of associated ontologies with gene provided by GO database.
GO ID Ontology Definition Evidence Reference
GO:0001518 Component Voltage-gated sodium channel complex IBA 21873635
GO:0005244 Function Voltage-gated ion channel activity IEA
GO:0005248 Function Voltage-gated sodium channel activity IBA 21873635
GO:0005248 Function Voltage-gated sodium channel activity NAS 9589372
GO:0005737 Component Cytoplasm IEA
Other IDs Other ids provides unique ids of gene in databases such as OMIM, HGNC, ENSEMBLE.
MIM HGNC e!Ensembl
182391 10590 ENSG00000153253
Protein
UniProt ID Q9NY46
Protein name Sodium channel protein type 3 subunit alpha (Sodium channel protein brain III subunit alpha) (Sodium channel protein type III subunit alpha) (Voltage-gated sodium channel subtype III) (Voltage-gated sodium channel subunit alpha Nav1.3)
Protein function Pore-forming subunit of Nav1.3, a voltage-gated sodium (Nav) channel that directly mediates the depolarizing phase of action potentials in excitable membranes. Navs, also called VGSCs (voltage-gated sodium channels) or VDSCs (voltage-dependent s
PDB 7W77 , 7W7F
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00520 Ion_trans 127 435 Ion transport protein Family
PF11933 Na_trans_cytopl 507 710 Cytoplasmic domain of voltage-gated Na+ ion channel Family
PF00520 Ion_trans 759 994 Ion transport protein Family
PF06512 Na_trans_assoc 998 1201 Sodium ion transport-associated Family
PF00520 Ion_trans 1205 1478 Ion transport protein Family
PF00520 Ion_trans 1525 1782 Ion transport protein Family
Tissue specificity TISSUE SPECIFICITY: Expressed in enterochromaffin cells in both colon and small bowel (at protein level). {ECO:0000269|PubMed:29142310}.
Sequence
MAQALLVPPGPESFRLFTRESLAAIEKRAAEEKAKKPKKEQDNDDENKPKPNSDLEAGKN
LPFIYGDIPPEMVSEPLEDLDPYYINKKTFIVMNKGKAIFRFSATSALYILTPLNPVRKI
AIKILVHSLFSMLIMCTILTNCVFMTLSNPPDWTKNVEYTFTGIYTFESLIKILARGFCL
EDFTFLRDPWNWLDFSVIVMAYVTEFVSLGNVSALRTFRVLRALKTISVIPGLKTIVGAL
IQSVKKLSDVMILTVFCLSVFALIGLQLFMGNLRNKCLQWPPSDSAFETNTTSYFNGTMD
SNGTFVNVTMSTFNWKDYIGDDSHFYVLDGQKDPLLCGNGSDAGQCPEGYICVKAGRNPN
YGYTSFDTFSWAFLSLFRLMTQDYWENLYQLTLRAAGKTYMIFFVLVIFLGSFYLVNLIL
AVVAMAYEEQNQATL
EEAEQKEAEFQQMLEQLKKQQEEAQAVAAASAASRDFSGIGGLGE
LLESSSEASKLSSKSAKEWRNRRKKRRQREHLEGNNKGERDSFPKSESEDSVKRSSFLFS
MDGNRLTSDKKFCSPHQSLLSIRGSLFSPRRNSKTSIFSFRGRAKDVGSENDFADDEHST
FEDSESRRDSLFVPHRHGERRNSNVSQASMSSRMVPGLPANGKMHSTVDCNGVVSLVGGP
SALTSPTGQLPPEGTTTETEVRKRRLSSYQISMEMLEDSSGRQRAVSIAS
ILTNTMEELE
ESRQKCPPCWYRFANVFLIWDCCDAWLKVKHLVNLIVMDPFVDLAITICIVLNTLFMAME
HYPMTEQFSSVLTVGNLVFTGIFTAEMVLKIIAMDPYYYFQEGWNIFDGIIVSLSLMELG
LSNVEGLSVLRSFRLLRVFKLAKSWPTLNMLIKIIGNSVGALGNLTLVLAIIVFIFAVVG
MQLFGKSYKECVCKINDDCTLPRWHMNDFFHSFLIVFRVLCGEWIETMWDCMEVAGQTMC
LIVFMLVMVIGNLVVLNLFLALLLSSFSSDNLAA
TDDDNEMNNLQIAVGRMQKGIDYVKN
KMRECFQKAFFRKPKVIEIHEGNKIDSCMSNNTGIEISKELNYLRDGNGTTSGVGTGSSV
EKYVIDENDYMSFINNPSLTVTVPIAVGESDFENLNTEEFSSESELEESKEKLNATSSSE
GSTVDVVLPREGEQAETEPEEDLKPEACFTEGCIKKFPFCQVSTEEGKGKIWWNLRKTCY
S
IVEHNWFETFIVFMILLSSGALAFEDIYIEQRKTIKTMLEYADKVFTYIFILEMLLKWV
AYGFQTYFTNAWCWLDFLIVDVSLVSLVANALGYSELGAIKSLRTLRALRPLRALSRFEG
MRVVVNALVGAIPSIMNVLLVCLIFWLIFSIMGVNLFAGKFYHCVNMTTGNMFDISDVNN
LSDCQALGKQARWKNVKVNFDNVGAGYLALLQVATFKGWMDIMYAAVDSRDVKLQPVYEE
NLYMYLYFVIFIIFGSFFTLNLFIGVIIDNFNQQKKKF
GGQDIFMTEEQKKYYNAMKKLG
SKKPQKPIPRPANKFQGMVFDFVTRQVFDISIMILICLNMVTMMVETDDQGKYMTLVLSR
INLVFIVLFTGEFVLKLVSLRHYYFTIGWNIFDFVVVILSIVGMFLAEMIEKYFVSPTLF
RVIRLARIGRILRLIKGAKGIRTLLFALMMSLPALFNIGLLLFLVMFIYAIFGMSNFAYV
KKEAGIDDMFNFETFGNSMICLFQITTSAGWDGLLAPILNSAPPDCDPDTIHPGSSVKGD
CGNPSVGIFFFVSYIIISFLVVVNMYIAVILENFSVATEESA
EPLSEDDFEMFYEVWEKF
DPDATQFIEFSKLSDFAAALDPPLLIAKPNKVQLIAMDLPMVSGDRIHCLDILFAFTKRV
LGESGEMDALRIQMEDRFMASNPSKVSYEPITTTLKRKQEEVSAAIIQRNFRCYLLKQRL
KNISSNYNKEAIKGRIDLPIKQDMIIDKLNGNSTPEKTDGSSSTTSPPSYDSVTKPDKEK
FEKDKPEKESKGKEVRENQK
Sequence length 2000
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG   Reactome
  Taste transduction   Phase 0 - rapid depolarisation
Associated diseases Disease information provided by ClinVar, GenCC, and GWAS databases.
Causal
Disease term Disease name dbSNP ID References
Arthritis Degenerative polyarthritis rs1594890601, rs1594882933, rs184370809, rs776489319, rs1594883470 21871595
Attention deficit hyperactivity disorder Attention deficit hyperactivity disorder rs786205019
Autism Autistic Disorder rs121964908, rs62643608, rs181327458, rs797046134, rs869312704, rs1555013332, rs876657679, rs1057518999, rs1057518658, rs771827120, rs1555187899, rs773080572, rs753871454, rs1684130791, rs1684180699
View all (8 more)
Developmental delay Global developmental delay rs28941770, rs199469464, rs281865469, rs143747297, rs398123009, rs587777428, rs786205133, rs606231459, rs797044854, rs797045027, rs864309504, rs878853160, rs886039902, rs886042046, rs886041291
View all (32 more)
Unknown
Disease term Disease name Evidence References Source
Ptosis Blepharoptosis, Ptosis ClinVar
Developmental And Epileptic Encephalopathy genetic developmental and epileptic encephalopathy, developmental and epileptic encephalopathy, 62 GenCC
Associations from Text Mining
Disease Name Relationship Type References
Autism Spectrum Disorder Associate 29929112, 30071822
Brain Diseases Associate 29466837, 37935051
Central Nervous System Vascular Malformations Associate 32515017
Channelopathies Associate 32515017
Death Sudden Associate 37995443
Depressive Disorder Treatment Resistant Associate 32515017
Developmental Disabilities Associate 32515017
Epilepsies Partial Associate 18242854, 24157691
Epilepsy Associate 18242854, 21893419, 24157691, 28074849, 32515017, 35801810, 37995443
Epilepsy Benign Neonatal Associate 21893419