Gene Page:SCN2B

Summary?
GeneID 6327
Symbol SCN2B
Synonyms ATFB14
Description sodium voltage-gated channel beta subunit 2
Reference MIM:601327|HGNC: HGNC: 10589|Ensembl:ENSG00000149575|HPRD:03208|Vega:OTTHUMG00000048248
Gene type protein-coding
Map location 11q23
Pascal p-value 0.022
Sherlock p-value 0.236
eGene Myers' cis & trans
Support EXCITABILITY

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
GSMA_I Genome scan meta-analysis Psr: 0.006
GO_Annotation Mapping neuro-related keywords to Gene Ontology annotations Hits with neuro-related keywords: 1

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs10945482 chr6 168620481 SCN2B 6327 0.11 trans
rs17172352 chr7 54630453 SCN2B 6327 0.13 trans
rs950656 chr7 54631085 SCN2B 6327 0.15 trans
rs4425711 chr7 54637269 SCN2B 6327 0.14 trans
rs7792590 chr7 54649801 SCN2B 6327 0.15 trans
rs13241879 chr7 54650771 SCN2B 6327 0.05 trans

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 weeks), 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.

No co-expressed genes in brain regions


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 TAS 9295116
GO:0031402 sodium ion binding IEA -
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0007268 synaptic transmission TAS neuron, Synap, Neurotransmitter (GO term level: 6) 9295116
GO:0006814 sodium ion transport TAS 9295116
GO:0006811 ion transport IEA -
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0001518 voltage-gated sodium channel complex TAS 9295116
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
REACTOME DEVELOPMENTAL BIOLOGY 396 292 All SZGR 2.0 genes in this pathway
REACTOME AXON GUIDANCE 251 188 All SZGR 2.0 genes in this pathway
REACTOME L1CAM INTERACTIONS 86 62 All SZGR 2.0 genes in this pathway
REACTOME INTERACTION BETWEEN L1 AND ANKYRINS 23 19 All SZGR 2.0 genes in this pathway
SENESE HDAC1 TARGETS DN 260 143 All SZGR 2.0 genes in this pathway
SENESE HDAC1 AND HDAC2 TARGETS DN 232 139 All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE LPS UP 431 237 All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE UP 530 342 All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK 1442 892 All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION DN 517 309 All SZGR 2.0 genes in this pathway
LU AGING BRAIN DN 153 120 All SZGR 2.0 genes in this pathway
MIKKELSEN MEF LCP WITH H3K4ME3 128 68 All SZGR 2.0 genes in this pathway
MIKKELSEN IPS LCP WITH H3K4ME3 174 100 All SZGR 2.0 genes in this pathway
MIKKELSEN ES LCP WITH H3K4ME3 142 80 All SZGR 2.0 genes in this pathway
MARTENS TRETINOIN RESPONSE UP 857 456 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-124/506 3336 3342 m8 hsa-miR-506 UAAGGCACCCUUCUGAGUAGA
hsa-miR-124brain UAAGGCACGCGGUGAAUGCC
miR-125/351 1963 1970 1A,m8 hsa-miR-125bbrain UCCCUGAGACCCUAACUUGUGA
hsa-miR-125abrain UCCCUGAGACCCUUUAACCUGUG
miR-133 2158 2165 1A,m8 hsa-miR-133a UUGGUCCCCUUCAACCAGCUGU
hsa-miR-133b UUGGUCCCCUUCAACCAGCUA
hsa-miR-133a UUGGUCCCCUUCAACCAGCUGU
hsa-miR-133b UUGGUCCCCUUCAACCAGCUA
miR-141/200a 3802 3808 m8 hsa-miR-141 UAACACUGUCUGGUAAAGAUGG
hsa-miR-200a UAACACUGUCUGGUAACGAUGU
miR-328 3245 3251 m8 hsa-miR-328brain CUGGCCCUCUCUGCCCUUCCGU
miR-34/449 2443 2450 1A,m8 hsa-miR-34abrain UGGCAGUGUCUUAGCUGGUUGUU
hsa-miR-34c AGGCAGUGUAGUUAGCUGAUUGC
hsa-miR-449 UGGCAGUGUAUUGUUAGCUGGU
hsa-miR-449b AGGCAGUGUAUUGUUAGCUGGC
hsa-miR-34abrain UGGCAGUGUCUUAGCUGGUUGUU
hsa-miR-34c AGGCAGUGUAGUUAGCUGAUUGC
hsa-miR-449 UGGCAGUGUAUUGUUAGCUGGU
hsa-miR-449b AGGCAGUGUAUUGUUAGCUGGC
hsa-miR-34abrain UGGCAGUGUCUUAGCUGGUUGUU
hsa-miR-34c AGGCAGUGUAGUUAGCUGAUUGC
hsa-miR-449 UGGCAGUGUAUUGUUAGCUGGU
hsa-miR-449b AGGCAGUGUAUUGUUAGCUGGC
miR-369-3p 3718 3724 1A hsa-miR-369-3p AAUAAUACAUGGUUGAUCUUU
miR-374 3718 3724 m8 hsa-miR-374 UUAUAAUACAACCUGAUAAGUG
miR-7 3657 3663 m8 hsa-miR-7SZ UGGAAGACUAGUGAUUUUGUUG
miR-9 3821 3827 m8 hsa-miR-9SZ UCUUUGGUUAUCUAGCUGUAUGA