Plod3 procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Plod3provided by RGD
Official Full Name: procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3provided by RGD
Primary source: RGD:631339
See related: EnsemblRapid:ENSRNOG00000001417 AllianceGenome:RGD:631339
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: Predicted to enable hexosyltransferase activity; iron ion binding activity; and procollagen-lysine 5-dioxygenase activity. Involved in cellular response to hormone stimulus. Predicted to be located in trans-Golgi network. Predicted to be active in several cellular components, including Golgi apparatus; endoplasmic reticulum; and extracellular space. Biomarker of hypothyroidism. Orthologous to human PLOD3 (procollagen-lysine,2-oxoglutarate 5-dioxygenase 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Lung (RPKM 119.2), Adrenal (RPKM 112.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 12q12

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (25313070..25323631, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (19676384..19686945, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (22716421..22726982, complement)

Chromosome 12 - NC_086030.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables L-ascorbic acid binding	IEA Inferred from Electronic Annotation more info
enables iron ion binding	IEA Inferred from Electronic Annotation more info
enables iron ion binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	ISO Inferred from Sequence Orthology more info
enables procollagen galactosyltransferase activity	IEA Inferred from Electronic Annotation more info
enables procollagen galactosyltransferase activity	ISO Inferred from Sequence Orthology more info
enables procollagen galactosyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info
enables procollagen glucosyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables procollagen glucosyltransferase activity	IEA Inferred from Electronic Annotation more info
enables procollagen glucosyltransferase activity	ISO Inferred from Sequence Orthology more info
enables procollagen glucosyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info
enables procollagen-lysine 5-dioxygenase activity	IBA Inferred from Biological aspect of Ancestor more info
enables procollagen-lysine 5-dioxygenase activity	IEA Inferred from Electronic Annotation more info
enables procollagen-lysine 5-dioxygenase activity	ISO Inferred from Sequence Orthology more info
enables procollagen-lysine 5-dioxygenase activity	ISS Inferred from Sequence or Structural Similarity more info
enables small molecule binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in basement membrane assembly	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within basement membrane assembly	ISO Inferred from Sequence Orthology more info
involved_in cellular response to hormone stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in collagen fibril organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in collagen fibril organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within collagen fibril organization	ISO Inferred from Sequence Orthology more info
involved_in collagen metabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within collagen metabolic process	ISO Inferred from Sequence Orthology more info
involved_in endothelial cell morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within endothelial cell morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in epidermis morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within epidermis morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in hydroxylysine biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in hydroxylysine biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in in utero embryonic development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within in utero embryonic development	ISO Inferred from Sequence Orthology more info
involved_in lung morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within lung morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in neural tube development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within neural tube development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within peptidyl-lysine hydroxylation	ISO Inferred from Sequence Orthology more info
involved_in peptidyl-lysine hydroxylation	ISO Inferred from Sequence Orthology more info
involved_in peptidyl-lysine hydroxylation	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein O-linked glycosylation	IEA Inferred from Electronic Annotation more info
involved_in protein O-linked glycosylation	ISO Inferred from Sequence Orthology more info
involved_in protein localization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within protein localization	ISO Inferred from Sequence Orthology more info
involved_in vasodilation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within vasodilation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in Golgi apparatus	IBA Inferred from Biological aspect of Ancestor more info
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
is_active_in collagen-containing extracellular matrix	IBA Inferred from Biological aspect of Ancestor more info
located_in collagen-containing extracellular matrix	IEA Inferred from Electronic Annotation more info
located_in collagen-containing extracellular matrix	ISO Inferred from Sequence Orthology more info
is_active_in endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISS Inferred from Sequence or Structural Similarity more info
located_in endoplasmic reticulum lumen	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	IEA Inferred from Electronic Annotation more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info
located_in extracellular space	ISS Inferred from Sequence or Structural Similarity more info
located_in rough endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
located_in trans-Golgi network	IEA Inferred from Electronic Annotation more info
located_in trans-Golgi network	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: multifunctional procollagen lysine hydroxylase and glycosyltransferase LH3

Names: LH3; bone protein I (BP-I); lysyl hydroxylase 3

NP_835202.2

EC 1.14.11.4

EC 2.4.1.50

EC 2.4.1.66

XP_063127219.1

EC 1.14.11.4

EC 2.4.1.50

EC 2.4.1.66

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_178101.3 → NP_835202.2 multifunctional procollagen lysine hydroxylase and glycosyltransferase LH3 precursor

See identical proteins and their annotated locations for NP_835202.2

Status: VALIDATED

Source sequence(s)

BC085683, CO386873

UniProtKB/Swiss-Prot

Q5U367, Q811A5

UniProtKB/TrEMBL

A0A8I6A8W8, A6J056

Related

ENSRNOP00000001921.4, ENSRNOT00000001921.6

Conserved Domains (1) summary

smart00702
Location:576 → 739

P4Hc; Prolyl 4-hydroxylase alpha subunit homologues