ADHDgene Database

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Large-scale studies

Data Summary

Published Variant
- SNP: 1391
- CNV: 398
- Others: 173
Published Gene: 359
Published Region: 128
Pathway by PBA: 8
Study: 361

Detail ...

Gene Report

Basic Info

Approved Symbol	LPCAT1
Previous Symbol	AYTL2
Symbol Alias	FLJ12443
Approved Name	lysophosphatidylcholine acyltransferase 1
Previous Name	acyltransferase like 2
Location	5p15.33
Position	chr5:1456595-1524092, -
External Links	HGNC: 25718 Entrez Gene: 79888 Ensembl: ENSG00000153395 UCSC: uc003jcm.2
No. of Studies	0 (significant: 0; non-significant: 0; trend: 0)
Source	Mapped by LD-proxy

Gene related studies (count: 0)

Gene related SNPs (count: 17)

Literature-origin SNPs (count: 0)

LD-proxies (count: 17)

rs_ID	Location	Functional Annotation
rs12654851	Chr5:1454004(Fwd)	downstream_gene_variant
rs9728	Chr5:1462098(Fwd)	3_prime_UTR_variant; NMD_transcript_variant; nc_transcript_variant; non_coding_exon_variant
rs2292023	Chr5:1461389(Fwd)	3_prime_UTR_variant; NMD_transcript_variant; downstream_gene_variant
rs11750173	Chr5:1460131(Fwd)	NMD_transcript_variant; downstream_gene_variant; intron_variant
rs2277006	Chr5:1466919(Fwd)	NMD_transcript_variant; nc_transcript_variant; non_coding_exon_variant; synonymous_variant
rs2963282	Chr5:1512208(Fwd)	NMD_transcript_variant; intron_variant; nc_transcript_variant
rs2962041	Chr5:1511222(Fwd)	NMD_transcript_variant; intron_variant; nc_transcript_variant
rs17588991	Chr5:1501695(Fwd)	NMD_transcript_variant; nc_transcript_variant; non_coding_exon_variant; synonymous_variant
rs2937652	Chr5:1460132(Fwd)	NMD_transcript_variant; downstream_gene_variant; intron_variant
rs11133792	Chr5:1477231(Fwd)	NMD_transcript_variant; downstream_gene_variant; intron_variant
rs4608970	Chr5:1519197(Fwd)	NMD_transcript_variant; intron_variant; nc_transcript_variant
rs27056	Chr5:1473977(Fwd)	NMD_transcript_variant; intron_variant
rs31491	Chr5:1477310(Fwd)	NMD_transcript_variant; downstream_gene_variant; intron_variant
rs27052	Chr5:1470069(Fwd)	NMD_transcript_variant; intron_variant; upstream_gene_variant
rs27053	Chr5:1470578(Fwd)	NMD_transcript_variant; intron_variant; upstream_gene_variant
rs2078247	Chr5:1452280(Fwd)	downstream_gene_variant
rs8352	Chr5:1463051(Fwd)	3_prime_UTR_variant; NMD_transcript_variant; nc_transcript_variant; non_coding_exon_variant

Gene related CNVs (count: 0)

Gene related other variant (count: 0)

Gene related regions (count: 0)

Gene related GO terms (count: 21)

GO terms by PBA (with statistical significance of FDR<0.05) (count: 0)

GO terms by database search (count: 21)

ID	Name	Type	No. of Genes in ADHDgene
GO:0047184	1-acylglycerophosphocholine O-acyltransferase activity	Molecular Function	1
GO:0046474	glycerophospholipid biosynthetic process	Biological Process	30
GO:0045732	positive regulation of protein catabolic process	Biological Process	8
GO:0044281	small molecule metabolic process	Biological Process	248
GO:0044255	cellular lipid metabolic process	Biological Process	30
GO:0043129	surfactant homeostasis	Biological Process	3
GO:0036151	phosphatidylcholine acyl-chain remodeling	Biological Process	15
GO:0036148	phosphatidylglycerol acyl-chain remodeling	Biological Process	10
GO:0019432	triglyceride biosynthetic process	Biological Process	12
GO:0016021	integral to membrane	Cellular Component	845
GO:0008654	phospholipid biosynthetic process	Biological Process	3
GO:0006654	phosphatidic acid biosynthetic process	Biological Process	12
GO:0006644	phospholipid metabolic process	Biological Process	59
GO:0005794	Golgi apparatus	Cellular Component	157
GO:0005789	endoplasmic reticulum membrane	Cellular Component	140
GO:0005783	endoplasmic reticulum	Cellular Component	100
GO:0000139	Golgi membrane	Cellular Component	95
GO:0005509	calcium ion binding	Molecular Function	124
GO:2001246	negative regulation of phosphatidylcholine biosynthetic process	Biological Process	1
GO:0047192	1-alkylglycerophosphocholine O-acetyltransferase activity	Molecular Function	1
GO:0060041	retina development in camera-type eye	Biological Process	8

Gene related KEGG pathways (count: 3)

ID	Name	No. of Genes in ADHDgene
hsa01100	Metabolic pathways	237
hsa00564	Glycerophospholipid metabolism	22
hsa00565	Ether lipid metabolism	15

Genes shared at least 5 GO terms with LPCAT1 (count: 31)

Gene Symbol	Pathway Count	Pathway List
LPCAT4	11	glycerophospholipid biosynthetic process; small molecule metabolic process; cellular lipid metabolic process; phosphatidylcholine acyl-chain remodeling; phosphatidylglycerol acyl-chain remodeling; triglyceride biosynthetic process; integral to membrane; phosphatidic acid biosynthetic process; phospholipid metabolic process; endoplasmic reticulum membrane; calcium ion binding;
PLA2G2A	9	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidylcholine acyl-chain remodeling; phosphatidylglycerol acyl-chain remodeling; phosphatidic acid biosynthetic process; phospholipid metabolic process; endoplasmic reticulum membrane; endoplasmic reticulum; calcium ion binding;
DGAT2	8	glycerophospholipid biosynthetic process; small molecule metabolic process; cellular lipid metabolic process; triglyceride biosynthetic process; integral to membrane; phospholipid metabolic process; endoplasmic reticulum membrane; endoplasmic reticulum;
PLA2G5	8	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidylcholine acyl-chain remodeling; phosphatidylglycerol acyl-chain remodeling; phosphatidic acid biosynthetic process; phospholipid metabolic process; Golgi apparatus; calcium ion binding;
PLA2G10	7	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidylcholine acyl-chain remodeling; phosphatidylglycerol acyl-chain remodeling; phosphatidic acid biosynthetic process; phospholipid metabolic process; calcium ion binding;
PLA2G1B	7	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidylcholine acyl-chain remodeling; phosphatidylglycerol acyl-chain remodeling; phosphatidic acid biosynthetic process; phospholipid metabolic process; calcium ion binding;
PLA2G2D	7	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidylcholine acyl-chain remodeling; phosphatidylglycerol acyl-chain remodeling; phosphatidic acid biosynthetic process; phospholipid metabolic process; calcium ion binding;
PLA2G2E	7	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidylcholine acyl-chain remodeling; phosphatidylglycerol acyl-chain remodeling; phosphatidic acid biosynthetic process; phospholipid metabolic process; calcium ion binding;
PLA2G4B	7	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidylcholine acyl-chain remodeling; phosphatidylglycerol acyl-chain remodeling; phosphatidic acid biosynthetic process; phospholipid metabolic process; calcium ion binding;
PLD1	7	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidic acid biosynthetic process; phospholipid metabolic process; Golgi apparatus; endoplasmic reticulum membrane; Golgi membrane;
PNPLA8	7	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidylcholine acyl-chain remodeling; integral to membrane; phospholipid metabolic process; endoplasmic reticulum membrane; Golgi membrane;
SMPD4	7	small molecule metabolic process; integral to membrane; phospholipid metabolic process; Golgi apparatus; endoplasmic reticulum membrane; endoplasmic reticulum; Golgi membrane;
CDIPT	6	glycerophospholipid biosynthetic process; small molecule metabolic process; integral to membrane; phospholipid metabolic process; endoplasmic reticulum membrane; Golgi membrane;
GPAT2	6	glycerophospholipid biosynthetic process; small molecule metabolic process; triglyceride biosynthetic process; integral to membrane; phosphatidic acid biosynthetic process; phospholipid metabolic process;
LPIN1	6	glycerophospholipid biosynthetic process; small molecule metabolic process; cellular lipid metabolic process; triglyceride biosynthetic process; phospholipid metabolic process; endoplasmic reticulum membrane;
MBOAT2	6	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidylcholine acyl-chain remodeling; integral to membrane; phospholipid metabolic process; endoplasmic reticulum membrane;
PLA2G16	6	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidylcholine acyl-chain remodeling; integral to membrane; phospholipid metabolic process; endoplasmic reticulum;
PLA2G3	6	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidylcholine acyl-chain remodeling; phosphatidylglycerol acyl-chain remodeling; phospholipid metabolic process; calcium ion binding;
PNPLA3	6	glycerophospholipid biosynthetic process; small molecule metabolic process; triglyceride biosynthetic process; integral to membrane; phospholipid metabolic process; endoplasmic reticulum membrane;
ELOVL7	6	small molecule metabolic process; cellular lipid metabolic process; triglyceride biosynthetic process; integral to membrane; endoplasmic reticulum membrane; endoplasmic reticulum;
STS	6	small molecule metabolic process; integral to membrane; phospholipid metabolic process; Golgi apparatus; endoplasmic reticulum membrane; endoplasmic reticulum;
ACHE	5	glycerophospholipid biosynthetic process; small molecule metabolic process; phospholipid metabolic process; Golgi apparatus; retina development in camera-type eye;
MBOAT1	5	glycerophospholipid biosynthetic process; small molecule metabolic process; integral to membrane; phospholipid metabolic process; endoplasmic reticulum membrane;
PEMT	5	glycerophospholipid biosynthetic process; small molecule metabolic process; integral to membrane; phospholipid metabolic process; endoplasmic reticulum membrane;
PLA2G4C	5	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidylcholine acyl-chain remodeling; phospholipid metabolic process; endoplasmic reticulum membrane;
PLD2	5	glycerophospholipid biosynthetic process; small molecule metabolic process; phosphatidic acid biosynthetic process; phospholipid metabolic process; endoplasmic reticulum membrane;
PLD3	5	glycerophospholipid biosynthetic process; small molecule metabolic process; integral to membrane; phospholipid metabolic process; endoplasmic reticulum membrane;
DSE	5	small molecule metabolic process; integral to membrane; Golgi apparatus; endoplasmic reticulum; Golgi membrane;
ELOVL6	5	small molecule metabolic process; cellular lipid metabolic process; triglyceride biosynthetic process; endoplasmic reticulum membrane; endoplasmic reticulum;
FADS1	5	small molecule metabolic process; cellular lipid metabolic process; integral to membrane; phospholipid biosynthetic process; endoplasmic reticulum membrane;
TPTE2	5	small molecule metabolic process; integral to membrane; phospholipid metabolic process; endoplasmic reticulum membrane; Golgi membrane;

Genes shared at least 2 KEGG pathways with LPCAT1 (count: 21)

Gene Symbol	Pathway Count	Pathway List
LPCAT4	3	Metabolic pathways; Glycerophospholipid metabolism; Ether lipid metabolism;
PLA2G10	3	Metabolic pathways; Glycerophospholipid metabolism; Ether lipid metabolism;
PLA2G1B	3	Metabolic pathways; Glycerophospholipid metabolism; Ether lipid metabolism;
PLA2G2A	3	Metabolic pathways; Glycerophospholipid metabolism; Ether lipid metabolism;
PLA2G2D	3	Metabolic pathways; Glycerophospholipid metabolism; Ether lipid metabolism;
PLA2G2E	3	Metabolic pathways; Glycerophospholipid metabolism; Ether lipid metabolism;
PLA2G3	3	Metabolic pathways; Glycerophospholipid metabolism; Ether lipid metabolism;
PLA2G4B	3	Metabolic pathways; Glycerophospholipid metabolism; Ether lipid metabolism;
PLA2G5	3	Metabolic pathways; Glycerophospholipid metabolism; Ether lipid metabolism;
PLA2G6	3	Metabolic pathways; Glycerophospholipid metabolism; Ether lipid metabolism;
PLD1	3	Metabolic pathways; Glycerophospholipid metabolism; Ether lipid metabolism;
PLD2	3	Metabolic pathways; Glycerophospholipid metabolism; Ether lipid metabolism;
CDIPT	2	Metabolic pathways; Glycerophospholipid metabolism;
CHKA	2	Metabolic pathways; Glycerophospholipid metabolism;
DGKH	2	Metabolic pathways; Glycerophospholipid metabolism;
GPAT2	2	Metabolic pathways; Glycerophospholipid metabolism;
MBOAT1	2	Metabolic pathways; Glycerophospholipid metabolism;
MBOAT2	2	Metabolic pathways; Glycerophospholipid metabolism;
PAFAH1B1	2	Metabolic pathways; Ether lipid metabolism;
PAFAH1B2	2	Metabolic pathways; Ether lipid metabolism;
PEMT	2	Metabolic pathways; Glycerophospholipid metabolism;

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Region: chr5:1456595..1524092 View in gBrowse