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    LOC4335342 NAD-dependent protein deacetylase SRT1-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4335342, updated on 17-Jul-2024

    Summary

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    Gene symbol
    LOC4335342
    Gene description
    NAD-dependent protein deacetylase SRT1-like
    Locus tag
    OSNPB_040271000
    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 flowers (RPKM 14.1), flower buds (RPKM 13.9) and 6 other tissues See more
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    Genomic context

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    See LOC4335342 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (11550635..11562995, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (11316226..11328669, complement)

    Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene ER membrane protein complex subunit 8/9 homolog Neighboring gene UDP-glycosyltransferase 92A1 Neighboring gene very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase PASTICCINO 2A-like Neighboring gene uncharacterized LOC9271938

    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
    • 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. OsSRT1 is involved in rice seed development through regulation of starch metabolism gene expression. Zhang H, et al. Plant Sci, 2016 Jul. PMID 27181944
    2. Rice NAD+-dependent histone deacetylase OsSRT1 represses glycolysis and regulates the moonlighting function of GAPDH as a transcriptional activator of glycolytic genes. Zhang H, et al. Nucleic Acids Res, 2017 Dec 1. PMID 28981755, Free PMC Article
    3. 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

    What's a GeneRIF?
    1. OsSRT1 inhibits transcriptional activity of glyceraldehyde-3-phosphatedehydrogenase (GAPDH) that is enriched on glycolytic genes promoters and stimulates their expression.
      Title: Rice NAD+-dependent histone deacetylase OsSRT1 represses glycolysis and regulates the moonlighting function of GAPDH as a transcriptional activator of glycolytic genes.
    2. regulates starch metabolism gene expression and seed development
      Title: OsSRT1 is involved in rice seed development through regulation of starch metabolism gene expression.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables NAD+ binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables transcription corepressor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    NAD-dependent protein deacetylase SRT1-like
    Names
    NAD-dependent protein deacetylase SRT1
    Os04g0271000

    NCBI Reference Sequences (RefSeq)

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    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_089038.1 Reference ASM3414082v1 Primary Assembly

      Range
      11550635..11562995 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066309702.1 → XP_066165799.1  NAD-dependent protein deacetylase SRT1-like isoform X2

    2. XM_066309701.1 → XP_066165798.1  NAD-dependent protein deacetylase SRT1-like isoform X1

    3. XM_015781019.3 → XP_015636505.1  NAD-dependent protein deacetylase SRT1-like isoform X2

      UniProtKB/Swiss-Prot
      B8ARK7, Q9XGT1
      Conserved Domains (1) summary
      cl00195
      Location:1 → 156
      SIR2; SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, ...

    4. XM_015781016.3 → XP_015636502.1  NAD-dependent protein deacetylase SRT1-like isoform X1

      UniProtKB/Swiss-Prot
      A0A678QYI2, B8ARK7, B9FE58, Q0JEI0, Q7XWV4, Q9XGT1
      Conserved Domains (1) summary
      cd01410
      Location:45 → 252
      SIRT7; Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein ...
    Nucleotide Protein
    Heading Accession and Version

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