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    LOC4346470 probable tyrosine-protein phosphatase DSP4 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4346470, updated on 1-Aug-2024

    Summary

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    Gene symbol
    LOC4346470
    Gene description
    probable tyrosine-protein phosphatase DSP4
    Locus tag
    OSNPB_090135700
    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
    Broad expression in leaves after flowering (RPKM 30.1), leaves before flowering (RPKM 23.2) and 6 other tissues See more
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    Genomic context

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    See LOC4346470 in Genome Data Viewer
    Location:
    chromosome: 9
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 9 NC_089043.1 (6718709..6724015)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 9 NC_029264.1 (2697272..2702669)

    Chromosome 9 - NC_089043.1Genomic Context describing neighboring genes Neighboring gene protein CLMP1 Neighboring gene uncharacterized LOC9266227 Neighboring gene vacuolar protein 8 Neighboring gene uncharacterized LOC136351850

    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. 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
    2. 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
    3. 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

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in protein dephosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    probable tyrosine-protein phosphatase DSP4
    Names
    Os09g0135700
    P0006E02.21
    probable tyrosine-protein phosphatase At1g05000
    putative tyrosine specific protein phosphatase protein

    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_089043.1 Reference ASM3414082v1 Primary Assembly

      Range
      6718709..6724015
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015756587.3 → XP_015612073.1  probable tyrosine-protein phosphatase DSP4 isoform X1

      Conserved Domains (1) summary
      cd14528
      Location:62 → 222
      PFA-DSP_Siw14; atypical dual specificity phosphatases similar to yeast Siw14

    2. XM_015756588.3 → XP_015612074.1  probable tyrosine-protein phosphatase DSP4 isoform X2

      UniProtKB/Swiss-Prot
      Q0J3B1, Q6K461
      UniProtKB/TrEMBL
      B8BD67, B9G283
      Conserved Domains (1) summary
      cd14528
      Location:62 → 209
      PFA-DSP_Siw14; atypical dual specificity phosphatases similar to yeast Siw14

    RNA

    1. XR_001540040.3 RNA Sequence

    2. XR_001540041.3 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version

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