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    PLOD1 procollagen-lysine,2-oxoglutarate 5-dioxygenase 1 [ Sus scrofa (pig) ]

    Gene ID: 100525583, updated on 17-Aug-2024

    Summary

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    Official Symbol
    PLOD1provided by VGNC
    Official Full Name
    procollagen-lysine,2-oxoglutarate 5-dioxygenase 1provided by VGNC
    Primary source
    VGNC:VGNC:91566
    See related
    Ensembl:ENSSSCG00000003433
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Sus scrofa
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
    Expression
    Ubiquitous expression in ovary (RPKM 36.6), spleen (RPKM 23.3) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See PLOD1 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    106 current Sscrofa11.1 (GCF_000003025.6) 6 NC_010448.4 (71987938..72019712)
    105 previous assembly Sscrofa10.2 (GCF_000003025.5) 6 NC_010448.3 (65898212..65928890)

    Chromosome 6 - NC_010448.4Genomic Context describing neighboring genes Neighboring gene natriuretic peptide B Neighboring gene KIAA2013 Neighboring gene mitofusin 2 Neighboring gene migration and invasion inhibitory protein

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome data used for gene annotation Transcriptome data used for gene annotation
    • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
    • BioProject: PRJNA311523
    • Publication: PMID 27646534
    • Analysis date: Thu Dec 14 17:10:49 2017

    Bibliography

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    Related articles in PubMed

    1. PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10 147 porcine full-length cDNA sequences. Uenishi H, et al. Nucleic Acids Res, 2007 Jan. PMID 17145712, Free PMC Article
    2. PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries. Uenishi H, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681463, Free PMC Article
    3. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    4. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RefSeq

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

    General protein information

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    Preferred Names
    procollagen-lysine,2-oxoglutarate 5-dioxygenase 1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...Open this link in a new tab

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

    Reference Sscrofa11.1 Primary Assembly

    Genomic

    1. NC_010448.4 Reference Sscrofa11.1 Primary Assembly

      Range
      71987938..72019712
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_003127577.5 → XP_003127625.1  procollagen-lysine,2-oxoglutarate 5-dioxygenase 1

      UniProtKB/TrEMBL
      A0A480I1E8, A0A480K999, A0A480M584, A0A480YJE7, A0A4X1W845, A0A8D1BVB5, A0A8D1KQ22
      Related
      ENSSSCP00000069997.1, ENSSSCT00000067475.1
      Conserved Domains (1) summary
      smart00702
      Location:560 → 723
      P4Hc; Prolyl 4-hydroxylase alpha subunit homologues
    Nucleotide Protein
    Heading Accession and Version

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