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    LOC4324491 2-hydroxyacyl-CoA lyase-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4324491, updated on 10-Oct-2024

    Summary

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    Gene symbol
    LOC4324491
    Gene description
    2-hydroxyacyl-CoA lyase-like
    Locus tag
    OSNPB_010505400
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Also known as
    2-HPCL
    Expression
    Ubiquitous expression in roots before flowering (RPKM 84.9), leaves before flowering (RPKM 72.0) and 6 other tissues See more
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    Genomic context

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    See LOC4324491 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (18126484..18130664)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (17560749..17564941)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107280205 Neighboring gene small nucleolar RNA R71 Neighboring gene pentatricopeptide repeat-containing protein At1g71060, mitochondrial Neighboring gene probable calcium-binding protein CML11

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome profiling of various organs at different developmental stages in rice Transcriptome profiling of various organs at different developmental stages in rice
    • Description: Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flowering, milk grains and mature seeds
    • BioProject: PRJNA243371
    • Publication: PMID 26387578
    • Analysis date: Fri Dec 15 20:02:59 2017

    Bibliography

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    Related articles in PubMed

    1. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Rice Full-Length cDNA Consortium, et al. Science, 2003 Jul 18. PMID 12869764

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables catalytic activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables magnesium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables thiamine pyrophosphate binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in fatty acid alpha-oxidation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in peroxisome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    2-hydroxyacyl-CoA lyase
    Names
    2-hydroxyphytanoyl-CoA lyase
    LOC_Os01g32080
    Oxalyl-CoA decarboxylase
    NP_001415044.1

    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_001428115.1 → NP_001415044.1  2-hydroxyacyl-CoA lyase

      Status: VALIDATED

      Source sequence(s)
      AK065111, CB657003, CB657004, CI563961
      UniProtKB/Swiss-Prot
      Q0JMH0

    RefSeqs of Annotated Genomes: GCF_034140825.1-RS_2024_06

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

    Reference ASM3414082v1 Primary Assembly

    Genomic

    1. NC_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      18126484..18130664
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q0JMH0.3 GenPept UniProtKB/Swiss-Prot:Q0JMH0

    Gene LinkOut

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