GPD1 Gene

Aliases
for GPD1 gene

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, ¹⁰fRNAdb, ¹²H-InvDB, ¹³NCBI, ¹⁴NONCODE, and/or ¹⁵RNAdb)
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Previous GC identifers: GC12P050792 GC12P050553 GC12P050214 GC12P048784 GC12P047531

Summaries
for GPD1 gene

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Genomic Views
for GPD1 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:

NC_000012.11  NC_018923.2  NT_029419.13  

SwitchGear Promoter luciferase reporter plasmid: GPD1 promoter sequence

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat GPD1

GPD1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)


GeneLoc information about chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12P050497:  view genomic region     (about GC identifiers)

Proteins
for GPD1 gene

(According to ¹UniProtKB, HORDE, ²neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, antibodies-online, and/or GeneTex,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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3 PDB 3D structures from and Proteopedia for GPD1:

1WPQ (3D)        1X0V (3D)        1X0X (3D)    

Explore the universe of human proteins at neXtProt for GPD1: NX_P21695

Explore proteomics data for GPD1 at MOPED

Post-translational modifications: 

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	antibodies-online peptides for GPD1

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	antibodies-online kits for GPD1 (9 products)

Domains /
Families
for GPD1 gene

(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GenesLikeMe)
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ProtoNet protein and cluster: P21695

Find genes that share domains with GPD1           About GenesLikeMe

Function
for GPD1 gene

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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     Gene Ontology (GO): 5 molecular function terms:    About this table

(inferred from 1 allele) (MGI details for Gpd1)

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		Selected qRT-PCR Assays for microRNAs that regulate GPD1 (see all 41):
		hsa-miR-4291 hsa-miR-4254 hsa-miR-631 hsa-miR-513a-5p hsa-miR-200a hsa-miR-4267 hsa-miR-141 hsa-miR-3148
		SwitchGear 3'UTR luciferase reporter plasmid: GPD1 3' UTR sequence

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Gene Editing Products:

DNA2.0 Custom Protein Engineering Service for GPD1

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In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for GPD1

Localization
for GPD1 gene

(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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Subcellular locations from COMPARTMENTS: 

Compartment	Confidence
cytosol	4
mitochondrion	2
nucleus	2
peroxisome	1

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Gene Ontology (GO): 5 cellular component terms:    About this table

Pathways & Interactions
for GPD1 gene

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GenesLikeMe, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to ¹UniProtKB, ²MINT, ³I2D, and/or ⁴STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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SuperPaths for GPD1 About     See pathways by source

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	SuperPath	Contained pathways About
1	Glycerophospholipid biosynthesis	Glycerophospholipid biosynthesis 0.64 Synthesis of PA 0.33 Phospholipid metabolism 0.64 glycerol-3-phosphate shuttle 0.00 Glycerophospholipid metabolism 0.62
2	Metabolism	Metabolism 0.38 Metabolism of lipids and lipoproteins 0.37
3	Fatty acid, triacylglycerol, and ketone body metabolism	Fatty acid, triacylglycerol, and ketone body metabolism 0.65
4	triacylglycerol biosynthesis	Triacylglyceride Synthesis 0.36
5	Triglyceride Biosynthesis	Triglyceride Biosynthesis

2 BioSystems Pathways for GPD1

	glycerol-3-phosphate shuttle
	Triacylglyceride Synthesis

2 Reactome Pathways for GPD1

	Synthesis of PA
	Triglyceride Biosynthesis

1 Kegg Pathway  (Kegg details for GPD1)

Glycerophospholipid metabolism

Gene Ontology (GO): Selected biological process terms (see all 16):    About this table

Drugs & Compounds
for GPD1 gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, Sets of similar genes according to GenesLikeMe)
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Transcripts
for GPD1 gene

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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Expression
for GPD1 gene

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GenesLikeMe, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE ¹MOPED, ²PaxDb, and ³MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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GPD1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>^2/3
CGAP TAG: CCTGGCATCT

About this image

Kidney (Urinary System)    fully expand to see all 8 entries
Loop of Henle Cells Loop of Henle
Metanephros
Adipose (Muscoskeletal System)    fully expand to see all 3 entries
Body Subcutaneous White Adipose
White adipocyte-like cells
Epithelial Cells
Loop of Henle Cells Loop of Henle
Neural Tube (Nervous System)    fully expand to see all 2 entries
Metencephalon
NULL (Uncategorized)
Adipose-derived stromal vascular fraction and adipocytes (HiQCell)

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In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for GPD1

Orthologs
for GPD1 gene

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD , ⁵MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or ⁶Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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Paralogs
for GPD1 gene

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68,Sets of similar genes according to GenesLikeMe)
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Paralogs for GPD1 gene

GPD1L²  

1 SIMAP similar gene for GPD1 using alignment to 2 protein entries:     GPDA_HUMAN (see all proteins):

GPD1L

Find genes that share paralogs with GPD1           About GenesLikeMe

Genomic Variants
for GPD1 gene

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, ⁴UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for GPD1 (see all 197)    About this table

Genomic Data					Transcription Related Data				Allele Frequencies
SNP ID	Valid	Clinical significance	Chr 12 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	--	--	--	-1st2nd3rd	--	--	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd
rs1438697201,2		--	47534240(+)	CTCCTG/TTCCCA	2	--	int1		0	--	--	--	--
rs765833911,2	F	--	47534315(+)	TGCCCA/GGGCTA	2	--	int1		3		CSA WA	122
rs1892115431,2		--	47534507(+)	GGGTGC/TAGCAA	2	--	int1		0	--	--	--	--
rs1816555041,2		--	47534531(+)	GAGGCA/GGAAGT	2	--	int1		0	--	--	--	--
rs22322081,2	C,F,H	--	47534570(+)	TCTCTT/CCTGCA	2	--	int1 trp3		9		NS EA WA	1306
rs1444162461,2	F	--	47534685(+)	GCCGTG/TGGGGC	4	V	syn1		1		NA	4550
rs1410140441,2	C	--	47534718(+)	TTTGGC/TGACAA	4	G	syn1		1		NA	4552
rs2010276311,2	C	--	47534733(+)	AAGGCG/AGCAGT	4	/A	syn1		1		MN	244
rs349443861,2	C	--	47534743(+)	TGATCC/TGGCTG	4	R W	mis1		3		NA	80
rs1996734551,2	C	--	47534744(+)	GATCCA/GGCTGG	4	Q R	mis1		0	--	--	--	--

HapMap Linkage Disequilibrium report for GPD1 (50497602 - 50505102 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for GPD1: --
Human Gene Mutation Database (HGMD): GPD1

Site Specific Mutation Identification with PCR Assays

SeqTarget long-range PCR primers for resequencing GPD1

DNA2.0 Custom Variant and Variant Library Synthesis for GPD1

Disorders / Diseases
for GPD1 gene

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB, Sets of similar genes according to GenesLikeMe)
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Hypertriglyceridemia, transient infantile (HTGTI) [MIM:614480]: An autosomal recessive disorder

characterized by onset of moderate to severe transient hypertriglyceridemia in infancy that normalizes with age.

The hypertriglyceridemia is associated with hepatomegaly, moderately elevated transaminases, persistent fatty

liver, and the development of hepatic fibrosis. Note=The disease is caused by mutations affecting the gene

represented in this entry

2 diseases for GPD1:    
About MalaCards

3 Novoseek inferred disease relationships for GPD1 gene    About this table

Publications
for GPD1 gene

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶HMDB, ⁷DrugBank, ⁸UniProtKB/TrEMBL, ⁹ Novoseek, and/or ¹⁰fRNAdb)
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1. Crystal structures of human glycerol 3-phosphate dehydrogenase 1 (GPD1). (PubMed id 16460752)^{1, 2, 9} Ou X....Rao Z. (J. Mol. Biol. 2006)
2. Sequence conservation and structural organization of the glycerol-3- phosphate dehydrogenase promoter in mice and humans. (PubMed id 2398890)^{1, 2, 9} Gwynn B.... Birkenmeier E.H. (Mol. Cell. Biol. 1990)
3. Transient infantile hypertriglyceridemia, fatty liver, and hepatic fibrosis caused by mutated GPD1, encoding glycerol-3-phosphate dehydrogenase 1. (PubMed id 22226083)^{1, 2} Basel-Vanagaite L.... Shamir R. (Am. J. Hum. Genet. 2012)
4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)^{1, 2} Gerhard D.S.... Malek J. (Genome Res. 2004)
5. Molecular cloning, sequencing and expression of a cDNA encoding a human liver NAD-dependent alpha-glycerol-3-phosphate dehydrogenase. (PubMed id 7772607)^{1, 2} Menaya J.... Ayuso M.S. (Biochim. Biophys. Acta 1995)
6. The influence of obstructive sleep apnea on the expression of glycerol-3-phosphate dehydrogenase 1 gene. (PubMed id 20404019)^{1, 9} Guindalini C....Tufik S. (Exp. Biol. Med. (Maywood) 2010)
7. Ability of cytosolic malate dehydrogenase and lactate dehydrogenase to increase the ratio of NADPH to NADH oxidation by cytosolic glycerol-3-phosphate dehydrogenase. (PubMed id 10190973)^{1, 9} Fahien L.A....Chobanian M. (Arch. Biochem. Biophys. 1999)
8. GRB14, GPD1, and GDF8 as potential network collaborators in weight loss-induced improvements in insulin action in human skeletal muscle. (PubMed id 16849634)^{1, 9} Park J.J....Hoffman E.P. (Physiol. Genomics 2006)
9. Enhanced glycerol 3-phosphate dehydrogenase activity in adipose tissue of obese humans. (PubMed id 14674682)^{1, 9} Swierczynski J....Sledzinski Z. (Mol. Cell. Biochem. 2003)
10. Initial characterization of the human central proteome. (PubMed id 21269460)² Burkard T.R.... Colinge J. (BMC Syst. Biol. 2011)

External Searches for GPD1 gene

Genome Databases showing GPD1 gene

Other Databases showing GPD1 gene

Specialized Databases showing GPD1 gene

Products
for GPD1 gene

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, GeneTex, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from genOway)
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