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    LOC4338081 probable ubiquitin-like-specific protease 2B [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4338081, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4338081
    Gene description
    probable ubiquitin-like-specific protease 2B
    Locus tag
    OSNPB_050207900
    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 51.9), leaves after flowering (RPKM 42.1) and 6 other tissues See more
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    Genomic context

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    See LOC4338081 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (6701558..6716000)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (6678294..6692661)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene shaggy-related protein kinase GSK2-like Neighboring gene probable serine/threonine-protein kinase PBL7 Neighboring gene mitochondrial dicarboxylate/tricarboxylate transporter DTC Neighboring gene CBL-interacting protein kinase 20-like

    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
    • 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 cysteine-type peptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    probable ubiquitin-like-specific protease 2B
    Names
    Os05g0207900

    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_089039.1 Reference ASM3414082v1 Primary Assembly

      Range
      6701558..6716000
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015783795.3 → XP_015639281.1  probable ubiquitin-like-specific protease 2B isoform X1

      UniProtKB/TrEMBL
      B8AZ55, Q60EZ0
      Conserved Domains (2) summary
      COG5160
      Location:248 → 508
      ULP1; Protease, Ulp1 family [Posttranslational modification, protein turnover, chaperones]
      NF033609
      Location:640 → 951
      MSCRAMM_ClfA; MSCRAMM family adhesin clumping factor ClfA

    2. XM_066310708.1 → XP_066166805.1  probable ubiquitin-like-specific protease 2B isoform X2

    3. XM_066310707.1 → XP_066166804.1  probable ubiquitin-like-specific protease 2B isoform X1

    4. XM_066310709.1 → XP_066166806.1  probable ubiquitin-like-specific protease 2B isoform X2

    5. XM_015783797.3 → XP_015639283.1  probable ubiquitin-like-specific protease 2B isoform X3

      UniProtKB/TrEMBL
      B8AZ55
      Conserved Domains (1) summary
      pfam02902
      Location:283 → 485
      Peptidase_C48; Ulp1 protease family, C-terminal catalytic domain
    Nucleotide Protein
    Heading Accession and Version

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