Gene info: ID 57556

Gene: SEMA6A

GENE ID: 57556

Synonyms: HT018|SEMA|SEMA6A1|SEMAQ|VIA

Description: semaphorin 6A

Gene type: protein-coding

Location: 5q23.1

dbXrefs: Ensembl:ENSG00000092421 MIM:605885 Vega:OTTHUMG00000162987 UniprotKB:Q9H2E6

RefSeq: NC_000005.10

Retrived from: PubMed|SNP Mapped

SNPs: 1 ANCO-SNPs

Phenotype: ND|AD

# Publications: 1

Sherlock p-value : NA (AD) NA (ND) (Frontal_Cortex)

Pascal p-value : 8.912e-1 (AD) 4.691e-1 (ND)

ANCO-SNPs

SNP ID	Position	Alleles	Trait	Variation Type
rs154576	chr5:116525936 (GRCh38.p7)	G>A	alcohol dependence	SNV(Single Nucleotide Variation)

DNA Methylation

There is no related methylation information for this gene.

Gene Expression in Different Tissues

Temporal and Spatial Expressions (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (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 average value of the expressions.

Top Co-expressed Genes in Brain-Frontal Cortex (BA9) (GTEx v7)

Top 10 positively co-expressed genes

Gene Symbol	Pearson Correlation Coefficient
PLEKHH1	0.899
COL4A5	0.887
PHLDB1	0.885
ZBED3	0.881
MOG	0.879
USP54	0.879
TTYH2	0.878
PSEN1	0.878
FRYL	0.876
HSPA2	0.872

Top 10 negatively co-expressed genes

Gene Symbol	Pearson Correlation Coefficient
OR4F5	-0.371
OR4F29	-0.37
CHRNA2	-0.307
PRTN3	-0.296
CALB2	-0.266
GPR153	-0.26
PAX2	-0.259
CUX2	-0.254
VIP	-0.248
NPBWR1	-0.247

There is no DrugBank record for this gene !

ID	Drug Name	Action	PubMed
C532162	2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine	"[PIK3CA gene mutant form results in increased susceptibility to 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine] which results in increased expression of SEMA6A mRNA"	20453058
C548651	2-(1'H-indolo-3'-carbonyl)thiazole-4-carboxylic acid methyl ester	2-(1'H-indolo-3'-carbonyl)thiazole-4-carboxylic acid methyl ester results in decreased expression of SEMA6A mRNA	19933214
C029790	2,2',3',4,4',5-hexachlorobiphenyl	"[2,4,4'-trichlorobiphenyl co-treated with 2,5,2',5'-tetrachlorobiphenyl co-treated with 2,4,5,2',5'-pentachlorobiphenyl co-treated with 2,2',3',4,4',5-hexachlorobiphenyl co-treated with 2,4,5,2',4',5'-hexachlorobiphenyl co-treated with PCB 180] results in increased expression of SEMA6A mRNA"	25510870
C511295	2,2',4,4'-tetrabromodiphenyl ether	"2,2',4,4'-tetrabromodiphenyl ether results in decreased expression of SEMA6A mRNA"	23146750
C081766	2,4,4'-trichlorobiphenyl	"[2,4,4'-trichlorobiphenyl co-treated with 2,5,2',5'-tetrachlorobiphenyl co-treated with 2,4,5,2',5'-pentachlorobiphenyl co-treated with 2,2',3',4,4',5-hexachlorobiphenyl co-treated with 2,4,5,2',4',5'-hexachlorobiphenyl co-treated with PCB 180] results in increased expression of SEMA6A mRNA"	25510870
C014024	2,4,5,2',4',5'-hexachlorobiphenyl	"2,4,5,2',4',5'-hexachlorobiphenyl results in decreased expression of SEMA6A mRNA"	23146750
C014024	2,4,5,2',4',5'-hexachlorobiphenyl	"[2,4,4'-trichlorobiphenyl co-treated with 2,5,2',5'-tetrachlorobiphenyl co-treated with 2,4,5,2',5'-pentachlorobiphenyl co-treated with 2,2',3',4,4',5-hexachlorobiphenyl co-treated with 2,4,5,2',4',5'-hexachlorobiphenyl co-treated with PCB 180] results in increased expression of SEMA6A mRNA"	25510870
C009828	2,4,5,2',5'-pentachlorobiphenyl	"[2,4,4'-trichlorobiphenyl co-treated with 2,5,2',5'-tetrachlorobiphenyl co-treated with 2,4,5,2',5'-pentachlorobiphenyl co-treated with 2,2',3',4,4',5-hexachlorobiphenyl co-treated with 2,4,5,2',4',5'-hexachlorobiphenyl co-treated with PCB 180] results in increased expression of SEMA6A mRNA"	25510870
C009407	2,5,2',5'-tetrachlorobiphenyl	"[2,4,4'-trichlorobiphenyl co-treated with 2,5,2',5'-tetrachlorobiphenyl co-treated with 2,4,5,2',5'-pentachlorobiphenyl co-treated with 2,2',3',4,4',5-hexachlorobiphenyl co-treated with 2,4,5,2',4',5'-hexachlorobiphenyl co-treated with PCB 180] results in increased expression of SEMA6A mRNA"	25510870
C023035	3,4,5,3',4'-pentachlorobiphenyl	"3,4,5,3',4'-pentachlorobiphenyl results in decreased expression of SEMA6A mRNA"	23146750
C009505	4,4'-diaminodiphenylmethane	"4,4'-diaminodiphenylmethane results in decreased expression of SEMA6A mRNA"	18648102
C459179	4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	"[NOG protein co-treated with entinostat co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in increased expression of SEMA6A mRNA"	27188386
C459179	4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	"[NOG protein co-treated with methylmercuric chloride co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in increased expression of SEMA6A mRNA"	27188386
C459179	4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	"[NOG protein co-treated with Phenylmercuric Acetate co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in increased expression of SEMA6A mRNA"	27188386
C516138	(6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine	"[NOG protein co-treated with entinostat co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in increased expression of SEMA6A mRNA"	27188386
C516138	(6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine	"[NOG protein co-treated with methylmercuric chloride co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in increased expression of SEMA6A mRNA"	27188386
C516138	(6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine	"[NOG protein co-treated with Phenylmercuric Acetate co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in increased expression of SEMA6A mRNA"	27188386
D000082	Acetaminophen	Acetaminophen affects the expression of SEMA6A mRNA	25458485
D000082	Acetaminophen	Acetaminophen results in increased expression of SEMA6A mRNA	22230336
D000082	Acetaminophen	Acetaminophen affects the expression of SEMA6A mRNA	17562736
D016604	Aflatoxin B1	Aflatoxin B1 results in decreased expression of SEMA6A mRNA	22100608
D000517	alpha-Chlorohydrin	alpha-Chlorohydrin results in decreased expression of SEMA6A mRNA	28522335
D000639	Amitriptyline	Amitriptyline results in increased expression of SEMA6A mRNA	22341215
C015001	arsenite	arsenite results in increased methylation of SEMA6A promoter	23974009
D001280	Atrazine	Atrazine results in increased expression of SEMA6A mRNA	22378314
C006703	benzo(b)fluoranthene	benzo(b)fluoranthene results in decreased expression of SEMA6A mRNA	26377693
D001564	Benzo(a)pyrene	Benzo(a)pyrene results in decreased expression of SEMA6A mRNA	20106945
D001564	Benzo(a)pyrene	Benzo(a)pyrene results in decreased expression of SEMA6A mRNA	21569818
D004958	Estradiol	Estradiol results in increased expression of SEMA6A mRNA	21185374
C044887	beta-methylcholine	beta-methylcholine affects the expression of SEMA6A mRNA	21179406
C006780	bisphenol A	bisphenol A results in decreased expression of SEMA6A mRNA	23146750
D020245	p-Chloromercuribenzoic Acid	p-Chloromercuribenzoic Acid results in increased expression of SEMA6A mRNA	26272509
D002794	Choline	[Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in decreased methylation of SEMA6A gene	20938992
C018021	cobaltous chloride	cobaltous chloride results in decreased expression of SEMA6A mRNA	24386269
C018021	cobaltous chloride	cobaltous chloride results in increased expression of SEMA6A mRNA	24386269
D003042	Cocaine	Cocaine results in decreased expression of SEMA6A mRNA	18000554
D003042	Cocaine	Cocaine results in increased expression of SEMA6A mRNA	15691709
D003976	Diazinon	Diazinon results in increased expression of SEMA6A mRNA	29108742
C000944	dicrotophos	dicrotophos results in increased expression of SEMA6A mRNA	28302478
C118739	entinostat	entinostat results in increased expression of SEMA6A mRNA	26272509
C118739	entinostat	"[NOG protein co-treated with entinostat co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in increased expression of SEMA6A mRNA"	27188386
D004997	Ethinyl Estradiol	Ethinyl Estradiol results in increased expression of SEMA6A mRNA	29097150
D005492	Folic Acid	[Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in decreased methylation of SEMA6A gene	20938992
D004397	Fonofos	Fonofos results in increased methylation of SEMA6A promoter	22847954
D017313	Fenretinide	Fenretinide results in decreased expression of SEMA6A mRNA	28973697
C561695	(+)-JQ1 compound	(+)-JQ1 compound results in increased expression of SEMA6A mRNA	24796395
D007854	Lead	Lead affects the splicing of SEMA6A mRNA	28903495
D007854	Lead	Lead results in decreased expression of SEMA6A mRNA	19921347
C008261	lead acetate	lead acetate results in decreased expression of SEMA6A mRNA	22613225
C042720	mercuric bromide	mercuric bromide results in increased expression of SEMA6A mRNA	26272509
D008715	Methionine	[Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in decreased methylation of SEMA6A gene	20938992
C004925	methylmercuric chloride	methylmercuric chloride results in increased expression of SEMA6A mRNA	23179753\|2627250
C004925	methylmercuric chloride	"[NOG protein co-treated with methylmercuric chloride co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in increased expression of SEMA6A mRNA"	27188386
D037742	Nanotubes, Carbon	"Nanotubes, Carbon analog results in decreased expression of SEMA6A mRNA"	25554681
D037742	Nanotubes, Carbon	"Nanotubes, Carbon results in decreased expression of SEMA6A mRNA"	25554681
C009618	O,O-diethyl O-3,5,6-trichloro-2-pyridyl phosphate	"O,O-diethyl O-3,5,6-trichloro-2-pyridyl phosphate results in decreased expression of SEMA6A mRNA"	21673326
C009618	O,O-diethyl O-3,5,6-trichloro-2-pyridyl phosphate	"PON1 protein affects the reaction [O,O-diethyl O-3,5,6-trichloro-2-pyridyl phosphate results in decreased expression of SEMA6A mRNA]"	21673326
D010278	Parathion	Parathion results in increased methylation of SEMA6A promoter	22847954
C410127	PCB 180	"[2,4,4'-trichlorobiphenyl co-treated with 2,5,2',5'-tetrachlorobiphenyl co-treated with 2,4,5,2',5'-pentachlorobiphenyl co-treated with 2,2',3',4,4',5-hexachlorobiphenyl co-treated with 2,4,5,2',4',5'-hexachlorobiphenyl co-treated with PCB 180] results in increased expression of SEMA6A mRNA"	25510870
C023036	perfluorooctanoic acid	perfluorooctanoic acid results in decreased expression of SEMA6A mRNA	23146750
D010662	Phenylmercuric Acetate	"[NOG protein co-treated with Phenylmercuric Acetate co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in increased expression of SEMA6A mRNA"	27188386
D017632	Asbestos, Serpentine	"Asbestos, Serpentine results in decreased expression of SEMA6A mRNA"	21148743
D012834	Silver	Silver results in decreased expression of SEMA6A mRNA	26551752\|2895954
C017947	sodium arsenite	sodium arsenite results in decreased expression of and affects the splicing of SEMA6A mRNA	25879800
C012568	terbufos	terbufos results in increased methylation of SEMA6A promoter	22847954
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin results in decreased expression of SEMA6A mRNA	19933214
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin affects the expression of SEMA6A mRNA	22298810
D013849	Thimerosal	Thimerosal results in decreased expression of SEMA6A mRNA	27188386
D014212	Tretinoin	Tretinoin results in decreased expression of SEMA6A mRNA	23724009
C012589	trichostatin A	trichostatin A results in increased expression of SEMA6A mRNA	24935251
D014635	Valproic Acid	Valproic Acid affects the expression of SEMA6A mRNA	25979313
D014635	Valproic Acid	Valproic Acid results in decreased expression of SEMA6A mRNA	23179753
D014635	Valproic Acid	Valproic Acid results in increased expression of SEMA6A mRNA	19101580
D014635	Valproic Acid	Valproic Acid affects the expression of SEMA6A mRNA	17292431
C025643	vinclozolin	vinclozolin affects the expression of SEMA6A mRNA	19015723
D024483	Vitamin K 3	Vitamin K 3 affects the expression of SEMA6A mRNA	20044591
C111237	vorinostat	vorinostat results in decreased expression of SEMA6A mRNA	27188386

GO/Pathway

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0005515	protein binding	-	IPI	10993894
GO:0030215	semaphorin receptor binding	-	IBA	21873635
GO:0045499	chemorepellent activity	-	IBA	21873635

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0001755	neural crest cell migration	-	IBA	21873635
GO:0006915	apoptotic process	-	NAS	10993894
GO:0007010	cytoskeleton organization	-	NAS	10993894
GO:0007166	cell surface receptor signaling pathway	-	NAS	10993894
GO:0007399	nervous system development	-	NAS	10993894
GO:0007411	axon guidance	-	NAS	10993894
GO:0009887	animal organ morphogenesis	-	NAS	10993894
GO:0016525	negative regulation of angiogenesis	-	IGI	24177325
GO:0030335	positive regulation of cell migration	-	IBA	21873635
GO:0035924	cellular response to vascular endothelial growth factor stimulus	-	IDA	21536891
GO:0048843	negative regulation of axon extension involved in axon guidance	-	IBA	21873635
GO:0050919	negative chemotaxis	-	IBA	21873635
GO:0070373	negative regulation of ERK1 and ERK2 cascade	-	IDA	21536891
GO:0071526	semaphorin-plexin signaling pathway	-	IBA	21873635
GO:0106089	negative regulation of cell adhesion involved in sprouting angiogenesis	-	IGI	24177325
GO:1900747	negative regulation of vascular endothelial growth factor signaling pathway	-	IDA	21536891
GO:1903671	negative regulation of sprouting angiogenesis	-	IDA	22184411
GO:2001224	positive regulation of neuron migration	-	IBA	21873635

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0005615	extracellular space	-	IBA	21873635
GO:0005887	integral component of plasma membrane	-	IBA	21873635
GO:0016021	integral component of membrane	-	NAS	10993894
GO:0030424	axon	-	NAS	10993894

KEGG ID	KEGG Term
hsa04360	Axon guidance

Reactome ID	Reactome Term	Evidence
R-HSA-1266738	Developmental Biology	IEA
R-HSA-373755	Semaphorin interactions	IEA
R-HSA-416700	Other semaphorin interactions	IEA
R-HSA-422475	Axon guidance	IEA

Interactions (STRING v10.5, Interaction Score >= 0.400)

Publications (Co-occurrence of gene symbol strings and ANCO-Dependence terms)

PMID	Title (Year)	Author	Journal
26124566	An in silico analytical study of lung cancer and smokers datasets from gene expression omnibus (GEO) for prediction of differentially expressed genes. (2015)	Hasan AN	Bioinformation