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plod1.L procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1 L homeolog [ Xenopus laevis (African clawed frog) ]

Gene ID: 495112, updated on 4-Nov-2024

Summary

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Official Symbol
plod1.L
Official Full Name
procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1 L homeolog
Primary source
Xenbase:XB-GENE-955419
Locus tag
XELAEV_18035200mg
See related
EnsemblRapid:ENSXLAG00005032285 AllianceGenome:Xenbase:XB-GENE-955419
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Xenopus laevis
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
Also known as
plod1
Summary
Predicted to enable L-ascorbic acid binding activity; iron ion binding activity; and procollagen-lysine 5-dioxygenase activity. Predicted to act upstream of or within peptidyl-lysine hydroxylation. Predicted to be located in rough endoplasmic reticulum membrane. Human ortholog(s) of this gene implicated in Ehlers-Danlos syndrome kyphoscoliotic type 1. Orthologous to human PLOD1 (procollagen-lysine,2-oxoglutarate 5-dioxygenase 1). [provided by Alliance of Genome Resources, Nov 2024]
Annotation information
Annotation category: partial on reference assembly
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Genomic context

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See plod1.L in Genome Data Viewer
Location:
chromosome: 7L
Exon count:
19
Annotation release Status Assembly Chr Location
101 current Xenopus_laevis_v10.1 (GCF_017654675.1) 7L NC_054383.1 (67968710..68001640, complement)
100 previous assembly Xenopus_laevis_v2 (GCF_001663975.1) 7L NC_030736.1 (59508990..59542302, complement)

Chromosome 7L - NC_054383.1Genomic Context describing neighboring genes Neighboring gene dispatched RND transporter family member 3, gene 2 L homeolog Neighboring gene mitofusin 2 L homeolog Neighboring gene KIAA2013 L homeolog Neighboring gene C-type natriuretic peptide 1-like

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Genetic and genomic tools for Xenopus research: The NIH Xenopus initiative. Klein SL, et al. Dev Dyn, 2002 Dec. PMID 12454917
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by Xenbase

Function Evidence Code Pubs
enables L-ascorbic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables dioxygenase activity IEA
Inferred from Electronic Annotation
more info
  
enables iron ion binding IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables procollagen-lysine 5-dioxygenase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within peptidyl-lysine hydroxylation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
located_in rough endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1 L homeolog
Names
procollagen-lysine 1, 2-oxoglutarate 5-dioxygenase 1
NP_001088279.1

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_001094810.1 → NP_001088279.1  procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1 L homeolog precursor

    See identical proteins and their annotated locations for NP_001088279.1

    Status: PROVISIONAL

    Source sequence(s)
    BC084287
    UniProtKB/TrEMBL
    A0A974CGD8, Q5XGZ0
    Related
    ENSXLAP00005097242.1, ENSXLAT00005099028.1
    Conserved Domains (1) summary
    smart00702
    Location:560 → 723
    P4Hc; Prolyl 4-hydroxylase alpha subunit homologues

RefSeqs of Annotated Genomes: Xenopus laevis Annotation Release 101 details...Open this link in a new tab

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

Reference Xenopus_laevis_v10.1 Primary Assembly

Genomic

  1. NC_054383.1 Reference Xenopus_laevis_v10.1 Primary Assembly

    Range
    67968710..68001640 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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