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    LOC4352108 E3 ubiquitin-protein ligase UPL2 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4352108, updated on 17-Jul-2024

    Summary

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    Gene symbol
    LOC4352108
    Gene description
    E3 ubiquitin-protein ligase UPL2
    Locus tag
    OSNPB_120428600
    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
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    Genomic context

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    See LOC4352108 in Genome Data Viewer
    Location:
    chromosome: 12
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 12 NC_089046.1 (14114875..14130448)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 12 NC_029267.1 (13686984..13702570)

    Chromosome 12 - NC_089046.1Genomic Context describing neighboring genes Neighboring gene endoglucanase 18-like Neighboring gene uncharacterized LOC112937450 Neighboring gene uncharacterized LOC136354802 Neighboring gene putative cyclin-dependent kinase F-2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. The LARGE2-APO1/APO2 regulatory module controls panicle size and grain number in rice. Huang L, et al. Plant Cell, 2021 May 31. PMID 33693937
    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
    3. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    4. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The LARGE2-APO1/APO2 regulatory module controls panicle size and grain number in rice.
      Title: The LARGE2-APO1/APO2 regulatory module controls panicle size and grain number in rice.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ubiquitin-protein transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in protein polyubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase UPL2
    Names
    HECT-domain domain-containing protein
    Os12g0428600

    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_089046.1 Reference ASM3414082v1 Primary Assembly

      Range
      14114875..14130448
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015763919.3 → XP_015619405.1  E3 ubiquitin-protein ligase UPL2

      UniProtKB/TrEMBL
      B8BPD0
      Conserved Domains (6) summary
      cd00078
      Location:3284 → 3643
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      cd14327
      Location:1296 → 1333
      UBA_atUPL1_2_like; UBA domain found in Arabidopsis thaliana E3 ubiquitin-protein ligase UPL1 (atUPL1), UPL2 (atUPL2) and similar proteins
      pfam06012
      Location:111 → 416
      DUF908; Domain of Unknown Function (DUF908)
      pfam06025
      Location:478 → 791
      DUF913; Domain of Unknown Function (DUF913)
      pfam14377
      Location:2601 → 2624
      DUF4414; Domain of unknown function (DUF4414)
      NF033845
      Location:2367 → 2604
      MSCRAMM_ClfB; MSCRAMM family adhesin clumping factor ClfB
    Nucleotide Protein
    Heading Accession and Version

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