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Plod2 procollagen lysine, 2-oxoglutarate 5-dioxygenase 2 [ Mus musculus (house mouse) ]

Gene ID: 26432, updated on 12-Aug-2019

Summary

Official Symbol
Plod2provided by MGI
Official Full Name
procollagen lysine, 2-oxoglutarate 5-dioxygenase 2provided by MGI
Primary source
MGI:MGI:1347007
See related
Ensembl:ENSMUSG00000032374
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
LH2; Plod-2; D530025C14Rik
Expression
Broad expression in limb E14.5 (RPKM 27.1), adrenal adult (RPKM 20.7) and 16 other tissues See more
Orthologs

Genomic context

See Plod2 in Genome Data Viewer
Location:
9 E3.3; 9 48.4 cM
Exon count:
20
Annotation release Status Assembly Chr Location
108 current GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (92539636..92608428)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 9 NC_000075.5 (92437061..92503266)

Chromosome 9 - NC_000075.6Genomic Context describing neighboring genes Neighboring gene phospholipid scramblase 4 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene RIKEN cDNA B430319G15 gene Neighboring gene predicted gene 2495 Neighboring gene 40S ribosomal protein S2 pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
L-ascorbic acid binding IEA
Inferred from Electronic Annotation
more info
 
dioxygenase activity IEA
Inferred from Electronic Annotation
more info
 
iron ion binding IEA
Inferred from Electronic Annotation
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
oxidoreductase activity IEA
Inferred from Electronic Annotation
more info
 
oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen IEA
Inferred from Electronic Annotation
more info
 
procollagen-lysine 5-dioxygenase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
procollagen-lysine 5-dioxygenase activity ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
collagen fibril organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
collagen metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
hydroxylysine biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
hydroxylysine biosynthetic process ISO
Inferred from Sequence Orthology
more info
 
oxidation-reduction process IEA
Inferred from Electronic Annotation
more info
 
peptidyl-lysine hydroxylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
peptidyl-lysine hydroxylation ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
procollagen-lysine,2-oxoglutarate 5-dioxygenase 2
Names
lysyl hydroxylase 2
NP_001136388.1
NP_036091.2
XP_030100253.1

NCBI Reference Sequences (RefSeq)

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_001142916.1NP_001136388.1  procollagen-lysine,2-oxoglutarate 5-dioxygenase 2 isoform 1 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1, also known as LH2b).
    Source sequence(s)
    AC165156, AF080572, AK033363, AV488215, BB644981, CF615856
    Consensus CDS
    CCDS52887.1
    UniProtKB/Swiss-Prot
    Q9R0B9
    UniProtKB/TrEMBL
    E9Q718
    Related
    ENSMUSP00000125373.1, ENSMUST00000160359.1
    Conserved Domains (1) summary
    smart00702
    Location:593756
    P4Hc; Prolyl 4-hydroxylase alpha subunit homologues
  2. NM_011961.3NP_036091.2  procollagen-lysine,2-oxoglutarate 5-dioxygenase 2 isoform 2 precursor

    See identical proteins and their annotated locations for NP_036091.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an internal in-frame coding exon compared to transcript variant 1, resulting in a shorter isoform (2, also known as LH2a) missing a 21 aa protein segment compared to isoform 1.
    Source sequence(s)
    AC165156, AF080572, AV488215, BB644981, CF615856
    Consensus CDS
    CCDS23408.1
    UniProtKB/Swiss-Prot
    Q9R0B9
    Related
    ENSMUSP00000068611.7, ENSMUST00000070522.13
    Conserved Domains (2) summary
    smart00702
    Location:572735
    P4Hc; Prolyl 4-hydroxylase alpha subunit homologues
    COG0463
    Location:347572
    WcaA; Glycosyltransferase involved in cell wall bisynthesis [Cell wall/membrane/envelope biogenesis]

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 108 details...Open this link in a new tab

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

Reference GRCm38.p6 C57BL/6J

Genomic

  1. NC_000075.6 Reference GRCm38.p6 C57BL/6J

    Range
    92539636..92608428
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030244393.1XP_030100253.1  procollagen-lysine,2-oxoglutarate 5-dioxygenase 2 isoform X1

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