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    LOC4350004 TOM1-like protein 3 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4350004, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4350004
    Gene description
    TOM1-like protein 3
    Locus tag
    OSNPB_110199700
    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 43.4), roots after flowering (RPKM 41.4) and 6 other tissues See more
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    Genomic context

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    See LOC4350004 in Genome Data Viewer
    Location:
    chromosome: 11
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 11 NC_089045.1 (5049346..5061891, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 11 NC_029266.1 (4993615..5010836, complement)

    Chromosome 11 - NC_089045.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136353975 Neighboring gene uncharacterized LOC4350003 Neighboring gene uncharacterized LOC107277163 Neighboring gene putative F-box/LRR-repeat protein At3g28410

    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 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. Leaf senescence in rice plants: cloning and characterization of senescence up-regulated genes. Lee RH, et al. J Exp Bot, 2001 May. PMID 11432928
    2. 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 3
    Names
    ADP-ribosylation factor-binding protein GGA3
    Os11g0199700
    seed protein B32E

    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_089045.1 Reference ASM3414082v1 Primary Assembly

      Range
      5049346..5061891 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015761555.3 → XP_015617041.1  TOM1-like protein 3

      UniProtKB/TrEMBL
      B8BJK6, Q0IU14, Q2R9B5
      Conserved Domains (2) summary
      cd03561
      Location:9 → 134
      VHS; VHS (Vps27/Hrs/STAM) domain family
      cd14231
      Location:194 → 272
      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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