Gene Page:SCN3A

Summary?
GeneID 6328
Symbol SCN3A
Synonyms NAC3|Nav1.3
Description sodium voltage-gated channel alpha subunit 3
Reference MIM:182391|HGNC:HGNC:10590|Ensembl:ENSG00000153253|HPRD:01671|Vega:OTTHUMG00000044171
Gene type protein-coding
Map location 2q24
Pascal p-value 0.036
Support EXCITABILITY

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
GSMA_IIA Genome scan meta-analysis (All samples) Psr: 0.02395

Section I. Genetics and epigenetics annotation


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
死神:胎儿(13 - 26 postconception周),ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
ISG20 0.67 0.74
S100A4 0.66 0.70
HLA-B 0.64 0.75
HLA-F 0.64 0.79
PLA1A 0.62 0.76
GBP2 0.62 0.72
CFB 0.60 0.71
HLA-C 0.60 0.72
HIGD1B 0.57 0.70
C16orf89 0.57 0.70
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
BLMH -0.55 -0.76
ARMCX5 -0.55 -0.76
ZNF23 -0.54 -0.76
CSTF3 -0.53 -0.76
PSPC1 -0.53 -0.74
PPP3CC -0.53 -0.76
SUPV3L1 -0.53 -0.72
GSTA4 -0.53 -0.78
GNL3 -0.53 -0.74
MARK3 -0.53 -0.75

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0005244 voltage-gated ion channel activity IEA -
GO:0005248 voltage-gated sodium channel activity NAS 9589372
GO:0031402 sodium ion binding IEA -
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0006814 sodium ion transport NAS 9589372
GO:0006811 ion transport IEA -
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0001518 voltage-gated sodium channel complex NAS -
GO:0016020 membrane IEA -
GO:0016021 integral to membrane IEA -

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
DAVICIONI TARGETS OF PAX FOXO1 FUSIONS UP 255 177 All SZGR 2.0 genes in this pathway
HOEBEKE LYMPHOID STEM CELL UP 95 64 All SZGR 2.0 genes in this pathway
LEE NEURAL CREST STEM CELL UP 146 99 All SZGR 2.0 genes in this pathway
JAATINEN HEMATOPOIETIC STEM CELL UP 316 190 All SZGR 2.0 genes in this pathway
GAUSSMANN MLL AF4 FUSION TARGETS F UP 185 119 All SZGR 2.0 genes in this pathway
MAHADEVAN IMATINIB RESISTANCE UP 23 15 All SZGR 2.0 genes in this pathway
HADDAD B LYMPHOCYTE PROGENITOR 293 193 All SZGR 2.0 genes in this pathway
HADDAD T LYMPHOCYTE AND NK PROGENITOR DN 63 41 All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN 1237 837 All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE INCIPIENT DN 165 106 All SZGR 2.0 genes in this pathway
ZHENG IL22 SIGNALING DN 42 26 All SZGR 2.0 genes in this pathway
LIN NPAS4 TARGETS UP 163 100 All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP 1305 895 All SZGR 2.0 genes in this pathway
ASGHARZADEH NEUROBLASTOMA POOR SURVIVAL DN 46 30 All SZGR 2.0 genes in this pathway
VERHAAK GLIOBLASTOMA PRONEURAL 177 132 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
miR-10 178 184 1A hsa-miR-10a UACCCUGUAGAUCCGAAUUUGUG
hsa-miR-10b UACCCUGUAGAACCGAAUUUGU
miR-132/212 99 105 m8 hsa-miR-212SZ UAACAGUCUCCAGUCACGGCC
hsa-miR-132brain UAACAGUCUACAGCCAUGGUCG
miR-145 66 72 m8 hsa-miR-145 GUCCAGUUUUCCCAGGAAUCCCUU
miR-153 683 689 1A hsa-miR-153 UUGCAUAGUCACAAAAGUGA
miR-182 90 96 1A hsa-miR-182 UUUGGCAAUGGUAGAACUCACA
miR-183 350 356 1A hsa-miR-183 UAUGGCACUGGUAGAAUUCACUG
miR-214 227 233 1A hsa-miR-214brain ACAGCAGGCACAGACAGGCAG
miR-223 95 101 m8 hsa-miR-223 UGUCAGUUUGUCAAAUACCCC
miR-24 1977 1983 1A hsa-miR-24SZ UGGCUCAGUUCAGCAGGAACAG
miR-25/32/92/363/367 1824 1830 m8 hsa-miR-25brain CAUUGCACUUGUCUCGGUCUGA
hsa-miR-32 UAUUGCACAUUACUAAGUUGC
hsa-miR-92 UAUUGCACUUGUCCCGGCCUG
hsa-miR-367 AAUUGCACUUUAGCAAUGGUGA
hsa-miR-92bSZ UAUUGCACUCGUCCCGGCCUC
miR-30-5p 32 39 1A,m8 hsa-miR-30a-5p UGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrain UGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZ UGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZ UGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5p UGUAAACAUCCUUGACUGGA
miR-339 1030 1036 1A hsa-miR-339 UCCCUGUCCUCCAGGAGCUCA
miR-363 708 714 1A hsa-miR-363 AUUGCACGGUAUCCAUCUGUAA
miR-379 1593 1599 1A hsa-miR-379brain UGGUAGACUAUGGAACGUA
miR-448 683 689 1A hsa-miR-448 UUGCAUAUGUAGGAUGUCCCAU
miR-494 697 703 1A hsa-miR-494brain UGAAACAUACACGGGAAACCUCUU
miR-495 1576 1582 1A hsa-miR-495brain AAACAAACAUGGUGCACUUCUUU
miR-496 1378 1384 1A hsa-miR-496 AUUACAUGGCCAAUCUC
hsa-miR-496 AUUACAUGGCCAAUCUC
miR-96 90 96 1A hsa-miR-96brain UUUGGCACUAGCACAUUUUUGC