Urod uroporphyrinogen decarboxylase [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Urodprovided by RGD
Official Full Name: uroporphyrinogen decarboxylaseprovided by RGD
Primary source: RGD:3946
See related: Ensembl:ENSRNOG00000018211 AllianceGenome:RGD:3946
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
Also known as: porphyrinogen carboxy-lyase
Summary: Enables ferrous iron binding activity and uroporphyrinogen decarboxylase activity. Involved in several processes, including porphyrin-containing compound metabolic process; response to estradiol; and response to fungicide. Located in cytosol. Biomarker of porphyria and porphyria cutanea tarda. Human ortholog(s) of this gene implicated in porphyria cutanea tarda. Orthologous to human UROD (uroporphyrinogen decarboxylase). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 604.9), Heart (RPKM 372.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q36

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (135701294..135705380, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (130464695..130468783, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (135855429..135859515, complement)

Chromosome 5 - NC_086023.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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?

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General gene information

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Markers

Urod (e-PCR)
- UniSTS:518533

RH135227 (e-PCR)
- UniSTS:218504

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ferrous iron binding	IDA Inferred from Direct Assay more info	PubMed
enables uroporphyrinogen decarboxylase activity	IBA Inferred from Biological aspect of Ancestor more info
enables uroporphyrinogen decarboxylase activity	IDA Inferred from Direct Assay more info	PubMed
enables uroporphyrinogen decarboxylase activity	IEA Inferred from Electronic Annotation more info
enables uroporphyrinogen decarboxylase activity	ISO Inferred from Sequence Orthology more info
enables uroporphyrinogen decarboxylase activity	NAS Non-traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in cellular response to arsenic-containing substance	IEP Inferred from Expression Pattern more info	PubMed
involved_in heme A biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in heme A biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in heme B biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in heme B biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in heme O biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in heme O biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in heme biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in heme biosynthetic process	IC Inferred by Curator more info	PubMed
acts_upstream_of_or_within heme biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in heme biosynthetic process	NAS Non-traceable Author Statement more info	PubMed
acts_upstream_of_or_within heme metabolic process	ISO Inferred from Sequence Orthology more info
involved_in liver development	IEP Inferred from Expression Pattern more info	PubMed
involved_in porphyrin-containing compound biosynthetic process	IDA Inferred from Direct Assay more info	PubMed
involved_in porphyrin-containing compound catabolic process	IEA Inferred from Electronic Annotation more info
involved_in porphyrin-containing compound catabolic process	ISO Inferred from Sequence Orthology more info
involved_in porphyrin-containing compound catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in porphyrin-containing compound metabolic process	ISO Inferred from Sequence Orthology more info
involved_in protoporphyrinogen IX biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in response to amine	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to estradiol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to ethanol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to fungicide	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to iron ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to mercury ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to methylmercury	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
involved_in uroporphyrinogen III metabolic process	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
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
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: uroporphyrinogen decarboxylase

Names: UPD; URO-D; porphyrinogen carboxylase; uroporphyrinogen III decarboxylase

NP_062082.1

EC 4.1.1.37

XP_038965299.1

EC 4.1.1.37

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_019209.1 → NP_062082.1 uroporphyrinogen decarboxylase

See identical proteins and their annotated locations for NP_062082.1

Status: VALIDATED

Source sequence(s)

BF414694, BI282626, DY314066, EV767503

UniProtKB/Swiss-Prot

P32362

UniProtKB/TrEMBL

A0A9K3Y7K6, B0BN55, F1LMP0

Related

ENSRNOP00000024719.5, ENSRNOT00000024719.7

Conserved Domains (1) summary

cd00717
Location:20 → 359

URO-D; Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction ...

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_086023.1 Reference GRCr8

Range

135701294..135705380 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039109371.2 → XP_038965299.1 uroporphyrinogen decarboxylase isoform X1

Conserved Domains (1) summary

cd00717
Location:1 → 264

URO-D; Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction ...