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    LOC4330439 3-dehydrosphinganine reductase TSC10A [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4330439, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4330439
    Gene description
    3-dehydrosphinganine reductase TSC10A
    Locus tag
    OSNPB_020701900
    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
    OJ1218_D07.5
    Expression
    Broad expression in roots before flowering (RPKM 38.8), leaves after flowering (RPKM 17.0) and 6 other tissues See more
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    Genomic context

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    See LOC4330439 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (28914705..28916891)

    Chromosome 2 - NC_029257.1Genomic Context describing neighboring genes Neighboring gene probable tocopherol O-methyltransferase, chloroplastic Neighboring gene V-type proton ATPase subunit G 1 Neighboring gene pentatricopeptide repeat-containing protein OTP51, chloroplastic Neighboring gene trihelix transcription factor GT-3b

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029257.1 Chromosome 2 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 3-dehydrosphinganine reductase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in 3-keto-sphinganine metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in sphingolipid biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    3-dehydrosphinganine reductase TSC10A
    Names
    Os02g0701900
    putative short-chain dehydrogenase/reductase

    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_001416842.1 → NP_001403771.1  3-dehydrosphinganine reductase TSC10A precursor

      Status: VALIDATED

      Source sequence(s)
      AK060640, CI166946
      UniProtKB/TrEMBL
      A0A0P0VNI6, A2X8N4, Q0DYC8, Q6ZHJ6

    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_029257.1 Reference IRGSP-1.0 Primary Assembly

      Range
      28914705..28916891
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015771126.2 → XP_015626612.1  3-dehydrosphinganine reductase TSC10A isoform X1

      UniProtKB/TrEMBL
      Q6ZHJ6
      Conserved Domains (1) summary
      cd08939
      Location:36 → 272
      KDSR-like_SDR_c; 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR

    2. XM_026022833.1 → XP_025878618.1  3-dehydrosphinganine reductase TSC10A isoform X2

      Conserved Domains (1) summary
      cl25409
      Location:36 → 178
      SDR; Short-chain dehydrogenases/reductases (SDR)
    Nucleotide Protein
    Heading Accession and Version

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