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    LOC4324462 PH, RCC1 and FYVE domains-containing protein 1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4324462, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4324462
    Gene description
    PH, RCC1 and FYVE domains-containing protein 1
    Locus tag
    OSNPB_010964800
    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 after flowering (RPKM 12.7), leaves after flowering (RPKM 10.7) and 6 other tissues See more
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    Genomic context

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    See LOC4324462 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (42541326..42547124)

    Chromosome 1 - NC_029256.1Genomic Context describing neighboring genes Neighboring gene actin-97 Neighboring gene G-type lectin S-receptor-like serine/threonine-protein kinase LECRK3 Neighboring gene protein MITOFERRINLIKE 1, chloroplastic Neighboring gene DNA-directed RNA polymerase V subunit 1

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029256.1 Chromosome 1 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 metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    PH, RCC1 and FYVE domains-containing protein 1
    Names
    E3 ubiquitin-protein ligase HERC2

    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_029256.1 Reference IRGSP-1.0 Primary Assembly

      Range
      42541326..42547124
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015758919.2 → XP_015614405.1  PH, RCC1 and FYVE domains-containing protein 1

      UniProtKB/TrEMBL
      B8A9M0, B9EWL9
      Conserved Domains (4) summary
      smart00064
      Location:420 → 488
      FYVE; Protein present in Fab1, YOTB, Vac1, and EEA1
      COG5184
      Location:35 → 413
      ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
      pfam08381
      Location:838 → 892
      BRX; Transcription factor regulating root and shoot growth via Pin3
      pfam13713
      Location:668 → 697
      BRX_N; Transcription factor BRX N-terminal domain
    Nucleotide Protein
    Heading Accession and Version

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