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Hgd homogentisate 1, 2-dioxygenase [ Rattus norvegicus (Norway rat) ]

Gene ID: 360719, updated on 2-Nov-2024

Summary

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Official Symbol
Hgdprovided by RGD
Official Full Name
homogentisate 1, 2-dioxygenaseprovided by RGD
Primary source
RGD:1308757
See related
EnsemblRapid:ENSRNOG00000002701 AllianceGenome:RGD:1308757
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
Predicted to enable homogentisate 1,2-dioxygenase activity and identical protein binding activity. Predicted to be involved in L-phenylalanine catabolic process. Predicted to act upstream of or within amino acid metabolic process. Human ortholog(s) of this gene implicated in alkaptonuria. Orthologous to human HGD (homogentisate 1,2-dioxygenase). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Liver (RPKM 1183.2) and Kidney (RPKM 1076.5) See more
Orthologs
human mouse all
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Genomic context

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See Hgd in Genome Data Viewer
Location:
11q21
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (76592202..76643776, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (63086750..63138325, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (65983221..66034555, complement)

Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene keratin, type II cytoskeletal 8-like Neighboring gene NADH:ubiquinone oxidoreductase subunit B4 Neighboring gene RAB, member of RAS oncogene family-like 3 Neighboring gene general transcription factor IIE subunit 1 Neighboring gene syntaxin binding protein 5L Neighboring gene U2 spliceosomal RNA

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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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Related articles in PubMed

  1. The molecular basis of alkaptonuria. Fernández-Cañón JM, et al. Nat Genet, 1996 Sep. PMID 8782815
  2. aku, a mutation of the mouse homologous to human alkaptonuria, maps to chromosome 16. Montagutelli X, et al. Genomics, 1994 Jan 1. PMID 8188247
  3. Large-scale proteomics and phosphoproteomics of urinary exosomes. Gonzales PA, et al. J Am Soc Nephrol, 2009 Feb. PMID 19056867, Free PMC Article
  4. In-depth proteomic analyses of exosomes isolated from expressed prostatic secretions in urine. Principe S, et al. Proteomics, 2013 May. PMID 23533145, Free PMC Article
  5. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. Prunotto M, et al. J Proteomics, 2013 Apr 26. PMID 23376485

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables homogentisate 1,2-dioxygenase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables homogentisate 1,2-dioxygenase activity ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in L-phenylalanine catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in L-phenylalanine catabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within amino acid metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in biological_process ND
No biological Data available
more info
  
involved_in tyrosine metabolic process IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
homogentisate 1,2-dioxygenase
NP_001012145.1
XP_038944422.1

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)

  1. NM_001012145.1 → NP_001012145.1  homogentisate 1,2-dioxygenase

    See identical proteins and their annotated locations for NP_001012145.1

    Status: PROVISIONAL

    Source sequence(s)
    BC078948
    UniProtKB/TrEMBL
    A6IR88, G3V6C2, Q6AYR0
    Related
    ENSRNOP00000003645.4, ENSRNOT00000003645.8
    Conserved Domains (1) summary
    TIGR01015
    Location:3 → 434
    hmgA; homogentisate 1,2-dioxygenase

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

  1. NC_086029.1 Reference GRCr8

    Range
    76592202..76643776 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039088494.2 → XP_038944422.1  homogentisate 1,2-dioxygenase isoform X1

    Conserved Domains (1) summary
    cl40423
    Location:5 → 258
    cupin_RmlC-like; RmlC-like cupin superfamily
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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