Gene info: ID 51557

Gene: LGSN

GENE ID: 51557

Synonyms: GLULD1|LGS

Description: lengsin, lens protein with glutamine synthetase domain

Gene type: protein-coding

Location: 6q12

dbXrefs: Ensembl:ENSG00000146166 MIM:611470 Vega:OTTHUMG00000014946 UniprotKB:Q5TDP6

RefSeq: NC_000006.12

Retrived from: SNP Mapped

SNPs: 12 ANCO-SNPs

Phenotype: OD|AD

# Publications: 0

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

Pascal p-value : 4.205e-1 (AD) 4.151e-1 (ND)

ANCO-SNPs

SNP ID	Position	Alleles	Trait	Variation Type
rs1322416	chr6:63544114 (GRCh38.p7)	T>G	alcohol dependence	SNV(Single Nucleotide Variation)
rs1197905	chr6:63525101 (GRCh38.p7)	T>C	alcohol dependence	SNV(Single Nucleotide Variation)
rs1681957	chr6:63513240 (GRCh38.p7)	T>C	alcohol dependence	SNV(Single Nucleotide Variation)
rs2984458	chr6:63505258 (GRCh38.p7)	T>C	alcohol dependence	SNV(Single Nucleotide Variation)
rs1744140	chr6:63502926 (GRCh38.p7)	T>C	alcohol dependence	SNV(Single Nucleotide Variation)
rs2758259	chr6:63483202 (GRCh38.p7)	C>T	alcohol dependence	SNV(Single Nucleotide Variation)
rs4557499	chr6:63480642 (GRCh38.p7)	G>T	alcohol dependence	SNV(Single Nucleotide Variation)
rs4299811	chr6:63480541 (GRCh38.p7)	C>T	alcohol dependence	SNV(Single Nucleotide Variation)
rs9353016	chr6:63476127 (GRCh38.p7)	G>A	alcohol dependence	SNV(Single Nucleotide Variation)
rs6942342	chr6:63466542 (GRCh38.p7)	T>C	alcohol dependence	SNV(Single Nucleotide Variation)
rs9449291	chr6:63453048 (GRCh38.p7)	G>A	alcohol dependence	SNV(Single Nucleotide Variation)
rs2459572	chr6:63283470 (GRCh38.p7)	C>T	opioid 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
OPN1MW	0.679
TAAR2	0.677
POM121L12	0.673
IL22RA2	0.66
HIST1H2AA	0.656
POTEA	0.654
DEFB121	0.65
OR2B2	0.648
OR2AP1	0.647
UGT2A3	0.645

Top 10 negatively co-expressed genes

Gene Symbol	Pearson Correlation Coefficient
FOXP3	-0.315
CLDND2	-0.29
SLC25A10	-0.281
TMEM187	-0.259
MYH15	-0.257
SPAG8	-0.257
B9D1	-0.254
PFKFB1	-0.253
INHA	-0.247
MROH8	-0.246

ID	Drug Name	Drug Type	CAS Num	Status	Role
DB00142	Glutamic Acid	Small Molecule	56-86-0	Approved\|Nutraceutical	Target

ID	Drug Name	Action	PubMed
D016604	Aflatoxin B1	Aflatoxin B1 results in decreased methylation of LGSN gene	27153756
D001564	Benzo(a)pyrene	Benzo(a)pyrene results in decreased expression of LGSN mRNA	21871943
C006780	bisphenol A	bisphenol A results in decreased expression of LGSN mRNA	26364221
C006780	bisphenol A	bisphenol A results in decreased expression of LGSN mRNA	25181051
D002104	Cadmium	Cadmium results in decreased expression of LGSN mRNA	24376830
D019256	Cadmium Chloride	Cadmium Chloride results in decreased methylation of LGSN promoter	22457795
D019327	Copper Sulfate	Copper Sulfate results in increased expression of LGSN mRNA	19549813
D019422	Dietary Sucrose	Dietary Sucrose results in decreased expression of LGSN mRNA	26033743
C051904	dinophysistoxin 1	dinophysistoxin 1 results in decreased expression of LGSN mRNA	28939011
C039281	furan	furan results in increased expression of LGSN mRNA	25539665
D006861	Hydrogen Peroxide	Hydrogen Peroxide affects the expression of LGSN mRNA	20044591
D008741	Methyl Methanesulfonate	Methyl Methanesulfonate results in decreased expression of LGSN mRNA	26011545
D052638	Particulate Matter	Particulate Matter results in decreased expression of LGSN mRNA	22178795
D011794	Quercetin	Quercetin results in decreased expression of LGSN mRNA	21632981
D012822	Silicon Dioxide	Silicon Dioxide analog results in decreased expression of LGSN mRNA	25895662
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin affects the expression of LGSN mRNA	21570461
C016805	tris(1,3-dichloro-2-propyl)phosphate	"tris(1,3-dichloro-2-propyl)phosphate results in increased expression of LGSN mRNA"	26179874
D001335	Vehicle Emissions	Vehicle Emissions results in decreased methylation of LGSN gene	25560391
D024483	Vitamin K 3	Vitamin K 3 affects the expression of LGSN mRNA	20044591
D019287	Zinc Sulfate	Zinc Sulfate results in increased expression of LGSN mRNA	27215404

GO/Pathway

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0004356	glutamate-ammonia ligase activity	-	IBA	21873635
GO:0004356	glutamate-ammonia ligase activity	NOT	IBA	21873635
GO:0004356	glutamate-ammonia ligase activity	-	IEA	-

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0006542	glutamine biosynthetic process	-	IBA	21873635
GO:0006542	glutamine biosynthetic process	NOT	IBA	21873635
GO:0006542	glutamine biosynthetic process	-	IEA	-
GO:0019740	nitrogen utilization	-	IBA	21873635
GO:0019740	nitrogen utilization	NOT	IBA	21873635

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0005737	cytoplasm	-	IBA	21873635
GO:0005886	plasma membrane	-	IEA	-
GO:0016020	membrane	-	IBA	21873635

KEGG ID	KEGG Term

Reactome ID	Reactome Term	Evidence

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

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

PMID	Title (Year)	Author	Journal