Dpyd dihydropyrimidine dehydrogenase [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Dpydprovided by RGD
Official Full Name: dihydropyrimidine dehydrogenaseprovided by RGD
Primary source: RGD:621218
See related: Ensembl:ENSRNOG00000017105 AllianceGenome:RGD:621218
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables several functions, including nucleotide binding activity; oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor; and protein homodimerization activity. Involved in several processes, including pyrimidine nucleobase metabolic process; response to glucocorticoid; and response to nutrient. Located in cytosol. Used to study colorectal cancer. Biomarker of liver disease. Human ortholog(s) of this gene implicated in acute lymphoblastic leukemia; dihydropyrimidine dehydrogenase deficiency; and pancreatic cancer. Orthologous to human DPYD (dihydropyrimidine dehydrogenase). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Liver (RPKM 653.6), Adrenal (RPKM 283.5) and 5 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q42

Exon count:: 27

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (209293902..210159777)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (206609043..207474982)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (221823692..222694627)

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?

Submit: New GeneRIF Correction

General gene information

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Markers

AW520962 (e-PCR)
- UniSTS:249373

AU029117 (e-PCR)
- UniSTS:111683

RH137409 (e-PCR)
- UniSTS:219497

AU049339 (e-PCR)
- UniSTS:145787

D2Rat118 (e-PCR), detects polymorphism
- UniSTS:118659

D2Got145 (e-PCR)
- UniSTS:112612

D2Uwm10 (e-PCR)
- UniSTS:240109

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 4 iron, 4 sulfur cluster binding	IEA Inferred from Electronic Annotation more info
enables FAD binding	IDA Inferred from Direct Assay more info	PubMed
enables FMN binding	ISO Inferred from Sequence Orthology more info
enables NADP binding	IBA Inferred from Biological aspect of Ancestor more info
enables NADP binding	IDA Inferred from Direct Assay more info	PubMed
enables NADP binding	ISO Inferred from Sequence Orthology more info
enables dihydropyrimidine dehydrogenase (NADP+) activity	IBA Inferred from Biological aspect of Ancestor more info
enables dihydropyrimidine dehydrogenase (NADP+) activity	IDA Inferred from Direct Assay more info	PubMed
enables dihydropyrimidine dehydrogenase (NADP+) activity	IEA Inferred from Electronic Annotation more info
enables dihydropyrimidine dehydrogenase (NADP+) activity	ISO Inferred from Sequence Orthology more info
enables dihydropyrimidine dehydrogenase (NADP+) activity	ISS Inferred from Sequence or Structural Similarity more info
enables flavin adenine dinucleotide binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables iron ion binding	IDA Inferred from Direct Assay more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	IDA Inferred from Direct Assay more info	PubMed
enables protein homodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables uracil binding	IBA Inferred from Biological aspect of Ancestor more info
enables uracil binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in CMP catabolic process	IEA Inferred from Electronic Annotation more info
involved_in CMP catabolic process	ISO Inferred from Sequence Orthology more info
involved_in UMP catabolic process	IEA Inferred from Electronic Annotation more info
involved_in UMP catabolic process	ISO Inferred from Sequence Orthology more info
involved_in beta-alanine biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in circadian rhythm	IDA Inferred from Direct Assay more info	PubMed
involved_in circadian rhythm	IEP Inferred from Expression Pattern more info	PubMed
involved_in dCMP catabolic process	IEA Inferred from Electronic Annotation more info
involved_in dCMP catabolic process	ISO Inferred from Sequence Orthology more info
involved_in dUMP catabolic process	IEA Inferred from Electronic Annotation more info
involved_in dUMP catabolic process	ISO Inferred from Sequence Orthology more info
involved_in purine nucleobase catabolic process	IEA Inferred from Electronic Annotation more info
involved_in purine nucleobase catabolic process	ISO Inferred from Sequence Orthology more info
involved_in pyrimidine nucleobase catabolic process	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within pyrimidine nucleobase catabolic process	ISO Inferred from Sequence Orthology more info
involved_in pyrimidine nucleobase catabolic process	ISO Inferred from Sequence Orthology more info
involved_in response to glucocorticoid	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nutrient	IDA Inferred from Direct Assay more info	PubMed
involved_in response to organic cyclic compound	IDA Inferred from Direct Assay more info	PubMed
involved_in response to xenobiotic stimulus	IDA Inferred from Direct Assay more info	PubMed
involved_in thymidine catabolic process	IEA Inferred from Electronic Annotation more info
involved_in thymidine catabolic process	ISO Inferred from Sequence Orthology more info
involved_in thymidine catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in thymine catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in thymine catabolic process	IEA Inferred from Electronic Annotation more info
involved_in thymine catabolic process	ISO Inferred from Sequence Orthology more info
involved_in uracil catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in uracil catabolic process	IEA Inferred from Electronic Annotation more info
involved_in uracil catabolic process	ISO Inferred from Sequence Orthology more info
involved_in uracil catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in uracil metabolic process	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	IEA Inferred from Electronic Annotation more info
is_active_in cytosol	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: dihydropyrimidine dehydrogenase [NADP(+)]

Names: DHPDHase; DPD; dihydrothymine dehydrogenase; dihydrouracil dehydrogenase

NP_112289.2

EC 1.3.1.2

XP_038959141.1

EC 1.3.1.2

XP_038959142.1

EC 1.3.1.2

XP_038959143.1

EC 1.3.1.2

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.

mRNA and Protein(s)

NM_031027.2 → NP_112289.2 dihydropyrimidine dehydrogenase [NADP(+)]

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

O89000

UniProtKB/TrEMBL

A0A0G2K355

Related

ENSRNOP00000072507.2, ENSRNOT00000086125.2

Conserved Domains (3) summary

cd02940
Location:532 → 834

DHPD_FMN; Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and ...

pfam14697
Location:946 → 1004

Fer4_21; 4Fe-4S dicluster domain

cl40752
Location:53 → 513

GltD; NADPH-dependent glutamate synthase beta chain or related oxidoreductase [Amino acid transport and metabolism, General function prediction only]

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086020.1 Reference GRCr8

Range

209293902..210159777

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039103213.2 → XP_038959141.1 dihydropyrimidine dehydrogenase [NADP(+)] isoform X1

Conserved Domains (2) summary

cl21457
Location:532 → 635

TIM; TIM-like beta/alpha barrel domains

cl40752
Location:53 → 513

GltD; NADPH-dependent glutamate synthase beta chain or related oxidoreductase [Amino acid transport and metabolism, General function prediction only]
XM_039103214.2 → XP_038959142.1 dihydropyrimidine dehydrogenase [NADP(+)] isoform X2

Conserved Domains (1) summary

cl40752
Location:53 → 512

GltD; NADPH-dependent glutamate synthase beta chain or related oxidoreductase [Amino acid transport and metabolism, General function prediction only]
XM_039103215.2 → XP_038959143.1 dihydropyrimidine dehydrogenase [NADP(+)] isoform X3

Conserved Domains (1) summary

cl40752
Location:53 → 283

GltD; NADPH-dependent glutamate synthase beta chain or related oxidoreductase [Amino acid transport and metabolism, General function prediction only]