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    LOC4339999 spastin [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4339999, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4339999
    Gene description
    spastin
    Locus tag
    OSNPB_060130000
    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 mature seeds (RPKM 7.1), roots after flowering (RPKM 7.1) and 6 other tissues See more
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    Genomic context

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    See LOC4339999 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (1588476..1602356)

    Chromosome 6 - NC_029261.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4339997 Neighboring gene cytochrome P450 704C1 Neighboring gene LRR receptor-like serine/threonine-protein kinase ERL1 Neighboring gene protein TPX2

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029261.1 Chromosome 6 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 ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in microtubule cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    spastin
    Names
    Os06g0130000
    P0538C01.26-1
    putative spastin protein orthologue
    putative spastin-like protein

    NCBI Reference Sequences (RefSeq)

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    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_029261.1 Reference IRGSP-1.0 Primary Assembly

      Range
      1588476..1602356
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015788476.2 → XP_015643962.1  spastin

      UniProtKB/TrEMBL
      A0A0N7KLG7, B8B1Z6, Q0DEX3, Q658G8
      Conserved Domains (4) summary
      cd02679
      Location:46 → 124
      MIT_spastin; MIT: domain contained within Microtubule Interacting and Trafficking molecules. This MIT domain sub-family is found in the AAA protein spastin, a probable ATPase involved in the assembly or function of nuclear protein complexes; spastins might also be ...
      pfam09336
      Location:445 → 485
      Vps4_C; Vps4 C terminal oligomerization domain
      pfam17862
      Location:406 → 436
      AAA_lid_3; AAA+ lid domain
      cd19524
      Location:216 → 379
      RecA-like_spastin; ATPase domain of spastin

    RNA

    1. XR_001546972.2 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version

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