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    LOC4328993 TOM1-like protein 9 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4328993, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4328993
    Gene description
    TOM1-like protein 9
    Locus tag
    OSNPB_020273700
    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
    Broad expression in roots after flowering (RPKM 54.9), leaves after flowering (RPKM 38.3) and 5 other tissues See more
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    Genomic context

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    See LOC4328993 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (9972647..9978053)

    Chromosome 2 - NC_029257.1Genomic Context describing neighboring genes Neighboring gene D-amino-acid transaminase, chloroplastic Neighboring gene uncharacterized LOC107280188 Neighboring gene proteinaceous RNase P 1, chloroplastic/mitochondrial Neighboring gene uncharacterized LOC4328995

    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 phosphatidylinositol binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ubiquitin binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    TOM1-like protein 9
    Names
    Os02g0273700
    P0413A11.12
    P0521F09.39
    TOM1-like protein 2
    putative VHS domain-containing 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_029257.1 Reference IRGSP-1.0 Primary Assembly

      Range
      9972647..9978053
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015771446.1 → XP_015626932.1  TOM1-like protein 9

      UniProtKB/TrEMBL
      B8AFN4, B9F4Y4, Q6ESS3, Q6K7U3
      Conserved Domains (4) summary
      PHA03247
      Location:283 → 512
      PHA03247; large tegument protein UL36; Provisional
      pfam09606
      Location:433 → 607
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      cd03561
      Location:3 → 132
      VHS; VHS (Vps27/Hrs/STAM) domain family
      cd14231
      Location:185 → 263
      GAT_GGA-like_plant; canonical GAT domain found in uncharacterized Golgi-localized gamma ear-containing Arf-binding protein (GGA)-like proteins mainly found in plants
    Nucleotide Protein
    Heading Accession and Version

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