EuRBPDB

Description

Ensembl ID: ENSG00000115159 (Gene tree)
Gene ID: 2820
Gene Symbol: GPD2
Alias: N
Full Name: glycerol-3-phosphate dehydrogenase 2
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 178,446 bases
Position: chr2:156,435,290-156,613,735
Accession: 4456
RBP type: non-canonical RBP
Summary: The protein encoded by this gene localizes to the inner mitochondrial membrane and catalyzes the conversion of glycerol-3-phosphate to dihydroxyacetone phosphate, using FAD as a cofactor. Along with GDP1, the encoded protein constitutes the glycerol phosphate shuttle, which reoxidizes NADH formed during glycolysis. Two transcript variants encoding the same protein have been found for this gene.[provided by RefSeq, Jan 2010]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & MCF10A	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & U2OS	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
22869490	Gene expression pattern of human chorion-derived mesenchymal stem cells during adipogenic differentiation.	Yonsei Med J	2012 Sep	Kim YH	doi: 10.3349/ymj.2012.53.5.1036.
9305530	Nucleotide sequence of cDNA fragments coding for the FAD-,glycerophosphate- and calcium-binding domains of human islet mitochondrial glycerophosphate dehydrogenase.	Biochem Mol Biol Int	1997 Sep	Novials A	-

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000415049	GPD2-205	456	-	ENSP00000412621	109 (aa)	-	E7EM56
ENST00000416888	GPD2-206	537	-	ENSP00000387475	56 (aa)	-	E9PDK4
ENST00000409861	GPD2-204	2640	-	ENSP00000386626	727 (aa)	-	P43304
ENST00000310454	GPD2-201	6041	XM_011510977	ENSP00000308610	727 (aa)	XP_011509279	P43304
ENST00000495851	GPD2-211	568	-	-	- (aa)	-	-
ENST00000540309	GPD2-213	1961	-	ENSP00000440892	379 (aa)	-	F5GYK7
ENST00000409674	GPD2-203	2397	XM_005246469	ENSP00000386425	727 (aa)	XP_005246526	P43304
ENST00000492005	GPD2-210	437	-	-	- (aa)	-	-
ENST00000496190	GPD2-212	584	-	-	- (aa)	-	-
ENST00000464846	GPD2-209	713	-	-	- (aa)	-	-
ENST00000438166	GPD2-208	2457	XM_017003830	ENSP00000409708	727 (aa)	XP_016859319	P43304
ENST00000430992	GPD2-207	496	-	ENSP00000408522	56 (aa)	-	E9PDK4
ENST00000409125	GPD2-202	2661	-	ENSP00000386484	601 (aa)	-	P43304

Gene Model

Pathways

Pathway ID	Pathway Name	Source
hsa00564	Glycerophospholipid metabolism	KEGG

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000115159	Cholesterol, LDL	1.72755772124452E-17	17903299
ENSG00000115159	Cholesterol, LDL	1.59528787691705E-11	17903299
ENSG00000115159	Carotid Artery Diseases	4.28552711567319E-7	17903303
ENSG00000115159	Hemoglobins	5.31938667086705E-7	17903294
ENSG00000115159	von Willebrand Factor	1.14853391256367E-14	17903294
ENSG00000115159	von Willebrand Factor	1.29620976980507E-11	17903294
ENSG00000115159	Echocardiography	1.4799868818416E-7	17903301
ENSG00000115159	Echocardiography	9.82101827483898E-11	17903301
ENSG00000115159	Echocardiography	3.45455495979437E-6	17903301
ENSG00000115159	Echocardiography	3.41299742303569E-5	17903301
ENSG00000115159	Platelet Function Tests	9.9900000E-006	-
ENSG00000115159	Motion Sickness	2E-29	25628336
ENSG00000115159	Colitis, Ulcerative	6E-6	25082827
ENSG00000115159	Myopia	6E-13	27182965
ENSG00000115159	Neuralgia	3E-6	28051079
ENSG00000115159	Osteoarthritis	3E-6	28051079
ENSG00000115159	Electrocardiography	2E-6	20031603

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000115159	rs297587	2	156499948	A	Myopia (age of diagnosis)	29808027	[0.034-0.065] unit decrease	0.0497	EFO_0004847\|HP_0000545
ENSG00000115159	rs297593	2	156507231	T	Spherical equivalent or myopia (age of diagnosis)	29808027	[NR] z score decrease	7.816	EFO_0004847\|HP_0000545\|EFO_0007814
ENSG00000115159	rs147372168	2	156497991	G	Familial squamous cell lung carcinoma	29924316	[2.29-7.60]	4.17	EFO_0000708\|EFO_0006953
ENSG00000115159	rs297589	2	156502238	?	Myopia	27182965	[1.044-1.078]	1.061	HP_0000545
ENSG00000115159	rs298235	2	156450176	A	Possible neuropathic pain in post total joint replacement surgery for osteoarthritis	28051079	[2.67-16.92]	6.72	EFO_0005762\|EFO_0002506
ENSG00000115159	rs56051278	2	156525242	G	Motion sickness	25628336	[0.055-0.078] unit increase	0.066	EFO_0006928
ENSG00000115159	rs297595	2	156509081	?	General cognitive ability	29844566	z-score increase	4.64	EFO_0004337
ENSG00000115159	rs297578	2	156498566	A	Intelligence	29942086	z-score increase	6.021	EFO_0004337

Protein-Protein Interaction (PPI)

* RBP PPI network refers to all genes directly bind to RBP

Orthologs identified by RBPome

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSG00000115159	GPD2	100	58.113	WBGene00012031	T25G3.4	100	57.007	Caenorhabditis_elegans

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0004367	glycerol-3-phosphate dehydrogenase [NAD+] activity	21873635.	IBA	Function
GO:0004368	glycerol-3-phosphate dehydrogenase (quinone) activity	21873635.	IBA	Function
GO:0004368	glycerol-3-phosphate dehydrogenase (quinone) activity	-	TAS	Function
GO:0005509	calcium ion binding	-	IEA	Function
GO:0005739	mitochondrion	21873635.	IBA	Component
GO:0005743	mitochondrial inner membrane	-	TAS	Component
GO:0006094	gluconeogenesis	-	IEA	Process
GO:0006127	glycerophosphate shuttle	-	TAS	Process
GO:0009331	glycerol-3-phosphate dehydrogenase complex	-	IEA	Component
GO:0019563	glycerol catabolic process	-	IEA	Process
GO:0035264	multicellular organism growth	-	IEA	Process
GO:0043010	camera-type eye development	-	IEA	Process
GO:0046168	glycerol-3-phosphate catabolic process	21873635.	IBA	Process
GO:0052591	sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity	-	IEA	Function