Phgdh phosphoglycerate dehydrogenase [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Phgdhprovided by RGD
Official Full Name: phosphoglycerate dehydrogenaseprovided by RGD
Primary source: RGD:61987
See related: EnsemblRapid:ENSRNOG00000019328 AllianceGenome:RGD:61987
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables phosphoglycerate dehydrogenase activity. Predicted to be involved in serine family amino acid biosynthetic process. Predicted to act upstream of or within several processes, including gamma-aminobutyric acid metabolic process; nervous system development; and proteinogenic amino acid metabolic process. Human ortholog(s) of this gene implicated in Neu-Laxova syndrome 1; PHGDH deficiency; and amino acid metabolic disorder. Orthologous to human PHGDH (phosphoglycerate dehydrogenase). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Kidney (RPKM 314.9), Thymus (RPKM 211.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q34

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (188595700..188624789, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (185906962..185936054, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (200484245..200513564, complement)

Chromosome 2 - NC_086020.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phgdh serves a protective role in Il1beta induced chondrocyte inflammation and oxidativestress damage.
Title: Phgdh serves a protective role in Il‑1β induced chondrocyte inflammation and oxidative‑stress damage.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Phgdh (e-PCR), detects polymorphism
- UniSTS:546936

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables NAD binding	IEA Inferred from Electronic Annotation more info
enables phosphoglycerate dehydrogenase activity	IBA Inferred from Biological aspect of Ancestor more info
enables phosphoglycerate dehydrogenase activity	IDA Inferred from Direct Assay more info	PubMed
enables phosphoglycerate dehydrogenase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within G1 to G0 transition	ISO Inferred from Sequence Orthology more info
involved_in L-serine biosynthetic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within L-serine metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within gamma-aminobutyric acid metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glial cell development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glutamine metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glycine metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neural tube development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neurogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron projection development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in serine family amino acid biosynthetic process	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within spinal cord development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within taurine metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within threonine metabolic process	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: D-3-phosphoglycerate dehydrogenase

Names: 3-PGDH; 3-phosphoglycerate dehydrogenase

NP_113808.1

EC 1.1.1.95

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.