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    LOC4340850 protein HOMOLOG OF MAMMALIAN LYST-INTERACTING PROTEIN 5 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4340850, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4340850
    Gene description
    protein HOMOLOG OF MAMMALIAN LYST-INTERACTING PROTEIN 5
    Locus tag
    OSNPB_060308800
    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 34.2), roots after flowering (RPKM 30.0) and 6 other tissues See more
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    Genomic context

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    See LOC4340850 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (11712576..11717048)

    Chromosome 6 - NC_029261.1Genomic Context describing neighboring genes Neighboring gene 60S ribosomal protein L15 Neighboring gene 65-kDa microtubule-associated protein 1 Neighboring gene protein S-acyltransferase 11 Neighboring gene uncharacterized LOC4340852 Neighboring gene putative BPI/LBP family protein At1g04970

    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

    Process Evidence Code Pubs
    involved_in late endosome to vacuole transport via multivesicular body sorting pathway IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in multivesicular body IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    protein HOMOLOG OF MAMMALIAN LYST-INTERACTING PROTEIN 5
    Names
    Os06g0308800
    P0414E10.11
    P0417E03.37
    putative LYST-interacting protein LIP5

    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
      11712576..11717048
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015788868.2 → XP_015644354.1  protein HOMOLOG OF MAMMALIAN LYST-INTERACTING PROTEIN 5

      UniProtKB/TrEMBL
      A0A0N7KLZ9, A2YC67, Q5Z4L5, Q5Z4Z7
      Conserved Domains (2) summary
      pfam04652
      Location:16 → 142
      Vta1; Vta1 like
      cl04813
      Location:290 → 436
      EIN3; Ethylene insensitive 3
    Nucleotide Protein
    Heading Accession and Version

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