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    LOC4349120 sphingoid long-chain bases kinase 1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4349120, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4349120
    Gene description
    sphingoid long-chain bases kinase 1
    Locus tag
    OSNPB_100516800
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Expression
    Ubiquitous expression in roots before flowering (RPKM 34.3), roots after flowering (RPKM 24.3) and 6 other tissues See more
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    Genomic context

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    See LOC4349120 in Genome Data Viewer
    Location:
    chromosome: 10
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 10 NC_029265.1 (19962696..19971253)

    Chromosome 10 - NC_029265.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107278116 Neighboring gene trihelix transcription factor GTL1-like Neighboring gene uncharacterized LOC4349119 Neighboring gene uncharacterized LOC4349121 Neighboring gene pyridoxal reductase, chloroplastic Neighboring gene methionine gamma-lyase

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029265.1 Chromosome 10 Reference IRGSP-1.0 Primary Assembly

    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: 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 kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in sphingosine biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in intracellular membrane-bounded organelle IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    sphingoid long-chain bases kinase 1
    Names
    Os10g0516800

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    RefSeqs of Annotated Genomes: Oryza sativa Japonica Group Annotation Release 102 details...Open this link in a new tab

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

    Reference IRGSP-1.0 Primary Assembly

    Genomic

    1. NC_029265.1 Reference IRGSP-1.0 Primary Assembly

      Range
      19962696..19971253
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015758909.2 → XP_015614395.1  sphingoid long-chain bases kinase 1

      UniProtKB/TrEMBL
      A0A5S6R824, A3C6H6, Q7XCS9, Q94HY9
      Conserved Domains (2) summary
      COG1597
      Location:657 → 730
      LCB5; Diacylglycerol kinase family enzyme [Lipid transport and metabolism, General function prediction only]
      pfam00781
      Location:234 → 365
      DAGK_cat; Diacylglycerol kinase catalytic domain
    Nucleotide Protein
    Heading Accession and Version

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