Gene: SPTLC3

55304
C20orf38|LCB 3|LCB2B|LCB3|SPT 3|SPT3|SPTLC2L|dJ718P11|dJ718P11.1|hLCB2b
serine palmitoyltransferase long chain base subunit 3
protein-coding
20p12.1
Ensembl:ENSG00000172296 MIM:611120 Vega:OTTHUMG00000031899 UniprotKB:Q9NUV7
NG_053155.1
SNP Mapped
1   ANCO-SNPs
AD
0   
NA (AD)  NA (ND)   (Frontal_Cortex)
1.857e-2 (AD)  8.385e-1 (ND)

ANCO-SNPs

SNP ID Position Alleles Trait Variation Type
rs360534chr20:13007876 (GRCh38.p7)G>Aalcohol dependenceSNV(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
TNFAIP80.886
LILRB20.867
SLC16A50.854
BNC20.843
ALPK10.838
DAPP10.838
PARP150.827
LY750.827
TRIM60.825
PDCD1LG20.82

Top 10 negatively co-expressed genes

Gene Symbol Pearson Correlation Coefficient
ASPDH-0.568
KCNIP3-0.545
BCL11A-0.544
MAGIX-0.543
EXTL1-0.541
MYADML2-0.536
RTN4R-0.535
TMEM179-0.53
NEUROD6-0.529
CHRNA4-0.526

Drugs/Compounds

ID Drug Name Drug Type CAS Num Status Role
DB00114Pyridoxal PhosphateSmall Molecule54-47-7Approved|Investigational|NutraceuticalTarget
ID Drug Name Action PubMed
C0297902,2',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 decreased expression of SPTLC3 mRNA"25510870
C0817662,4,4'-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 decreased expression of SPTLC3 mRNA"25510870
C0140242,4,5,2',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 decreased expression of SPTLC3 mRNA"25510870
C0098282,4,5,2',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 decreased expression of SPTLC3 mRNA"25510870
C0094072,5,2',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 decreased expression of SPTLC3 mRNA"25510870
C4591794-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide"[NOG protein co-treated with mercuric bromide 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 SPTLC3 mRNA"27188386
C4591794-(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 SPTLC3 mRNA"27188386
C4591794-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide"[NOG protein co-treated with Valproic Acid 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 SPTLC3 mRNA"27188386
C516138(6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine"[NOG protein co-treated with mercuric bromide 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 SPTLC3 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 SPTLC3 mRNA"27188386
C516138(6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine"[NOG protein co-treated with Valproic Acid 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 SPTLC3 mRNA"27188386
C0207389,10-dihydro-9,10-dihydroxybenzo(a)pyrene"9,10-dihydro-9,10-dihydroxybenzo(a)pyrene results in decreased expression of SPTLC3 mRNA"26238291
D000082AcetaminophenAcetaminophen results in decreased expression of SPTLC3 mRNA21420995|2906747
D020106AcrylamideAcrylamide results in increased expression of SPTLC3 mRNA28959563
D016604Aflatoxin B1Aflatoxin B1 affects the expression of SPTLC3 protein20106945
D016604Aflatoxin B1Aflatoxin B1 results in decreased expression of SPTLC3 mRNA21632981|2164198
D000393Air PollutantsAir Pollutants analog results in decreased expression of SPTLC3 mRNA21757418
C406592azaspiracidazaspiracid results in decreased expression of SPTLC3 mRNA28939011
D001379AzathioprineAzathioprine results in decreased expression of SPTLC3 mRNA22623647
D001507BeclomethasoneBeclomethasone results in increased expression of SPTLC3 mRNA23656298
D001564Benzo(a)pyreneBenzo(a)pyrene results in decreased expression of SPTLC3 mRNA20106945|2163298
D0151237,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide"7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide results in decreased expression of SPTLC3 mRNA"26238291
C006780bisphenol Abisphenol A affects the expression of SPTLC3 mRNA21786754
C006780bisphenol Abisphenol A results in increased expression of SPTLC3 mRNA27685785
C006780bisphenol Abisphenol A affects the expression of SPTLC3 mRNA21786754
C006780bisphenol A[bisphenol A co-treated with Testosterone] results in increased expression of SPTLC3 mRNA26496021
C006780bisphenol Abisphenol A results in decreased expression of SPTLC3 mRNA25181051
D002737ChloropreneChloroprene results in increased expression of SPTLC3 mRNA23125180
D019327Copper SulfateCopper Sulfate results in decreased expression of SPTLC3 mRNA19549813
D016572CyclosporineCyclosporine results in decreased expression of SPTLC3 mRNA20106945|2163298
D003561CytarabineCytarabine results in decreased expression of SPTLC3 mRNA21198554
D005557FormaldehydeFormaldehyde results in decreased expression of SPTLC3 mRNA23649840
D005557FormaldehydeFormaldehyde results in increased expression of SPTLC3 mRNA23649840
D017313FenretinideFenretinide results in increased expression of SPTLC3 mRNA28973697
C045463leflunomideleflunomide results in decreased expression of SPTLC3 mRNA28988120
C042720mercuric bromidemercuric bromide results in increased expression of SPTLC3 mRNA26272509
C042720mercuric bromide"[NOG protein co-treated with mercuric bromide 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 SPTLC3 mRNA"27188386
D008741Methyl MethanesulfonateMethyl Methanesulfonate results in decreased expression of SPTLC3 mRNA23649840
C029938nickel sulfatenickel sulfate results in decreased expression of SPTLC3 mRNA22714537
D009538NicotineNicotine results in increased expression of SPTLC3 mRNA23825647
C410127PCB 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 decreased expression of SPTLC3 mRNA"25510870
D010662Phenylmercuric 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 SPTLC3 mRNA"27188386
D010662Phenylmercuric AcetatePhenylmercuric Acetate results in increased expression of SPTLC3 mRNA26272509
C006253pirinixic acid[pirinixic acid co-treated with PPARA] results in increased expression of SPTLC3 mRNA20813756
C006253pirinixic acidpirinixic acid results in increased expression of SPTLC3 mRNA20813756
D011078Polychlorinated BiphenylsPolychlorinated Biphenyls affects the expression of SPTLC3 mRNA21334430
C027373potassium chromate(VI)potassium chromate(VI) results in decreased expression of SPTLC3 mRNA22714537
D011794QuercetinQuercetin results in decreased expression of SPTLC3 mRNA21632981
D012822Silicon DioxideSilicon Dioxide analog results in decreased expression of SPTLC3 mRNA25895662
D013739Testosterone[bisphenol A co-treated with Testosterone] results in increased expression of SPTLC3 mRNA26496021
D013749TetrachlorodibenzodioxinTetrachlorodibenzodioxin results in decreased expression of SPTLC3 mRNA20106945|2163298
D013749TetrachlorodibenzodioxinTetrachlorodibenzodioxin results in increased expression of SPTLC3 mRNA23152189
D013752TetracyclineTetracycline results in increased expression of SPTLC3 mRNA16917069
D014028Tobacco Smoke PollutionTobacco Smoke Pollution results in decreased expression of SPTLC3 mRNA28065790
C012589trichostatin Atrichostatin A results in increased expression of SPTLC3 mRNA24935251
C016805tris(1,3-dichloro-2-propyl)phosphate"tris(1,3-dichloro-2-propyl)phosphate results in decreased expression of SPTLC3 mRNA"26179874
D014520UrethaneUrethane results in decreased expression of SPTLC3 mRNA28818685
D014635Valproic Acid"[NOG protein co-treated with Valproic Acid 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 SPTLC3 mRNA"27188386
D014635Valproic AcidValproic Acid results in increased expression of SPTLC3 mRNA23179753|2438349
D014638VanadatesVanadates results in increased expression of SPTLC3 mRNA22714537
D001335Vehicle EmissionsVehicle Emissions results in decreased methylation of SPTLC3 gene25560391
D014810Vitamin EVitamin E results in decreased expression of SPTLC3 mRNA19244175
C088658zoledronic acidzoledronic acid results in decreased expression of SPTLC3 mRNA24714768

GO/Pathway

GO ID GO Term Qualifier Evidence PubMed
GO:0004758serine C-palmitoyltransferase activity-IDA19416851  19648650  
GO:0004758serine C-palmitoyltransferase activity-TAS-  
GO:0005515protein binding-IPI19416851  
GO:0030170pyridoxal phosphate binding-IEA-  
GO ID GO Term Qualifier Evidence PubMed
GO:0030148sphingolipid biosynthetic process-TAS19416851  
GO:0046520sphingoid biosynthetic process-IDA19648650  
GO ID GO Term Qualifier Evidence PubMed
GO:0005789endoplasmic reticulum membrane-TAS-  
GO:0016021integral component of membrane-IEA-  
GO:0017059serine C-palmitoyltransferase complex-IDA17331073  19416851  
KEGG ID KEGG Term
hsa00600Sphingolipid metabolism
hsa01100Metabolic pathways
Reactome ID Reactome Term Evidence
R-HSA-1430728MetabolismTAS
R-HSA-1660661Sphingolipid de novo biosynthesisTAS
R-HSA-428157Sphingolipid metabolismTAS
R-HSA-556833Metabolism of lipidsTAS

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

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

PMID Title (Year) Author Journal