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    LOC4325048 polypyrimidine tract-binding protein homolog 3 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4325048, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4325048
    Gene description
    polypyrimidine tract-binding protein homolog 3
    Locus tag
    OSNPB_010867800
    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
    Also known as
    P0677H08.8
    Expression
    Ubiquitous expression in leaves before flowering (RPKM 46.3), roots after flowering (RPKM 35.4) and 6 other tissues See more
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    Genomic context

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    See LOC4325048 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (38208253..38212558)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (37580457..37584839)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene sterol 3-beta-glucosyltransferase UGT80B1 Neighboring gene protein YIP4b Neighboring gene protein LIKE COV 2 Neighboring gene ethylene-responsive transcription factor ABR1

    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 mRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    polypyrimidine tract-binding protein homolog 3
    Names
    Os01g0867800
    polypirimidine tract binding protein-like

    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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      38208253..38212558
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015758117.3 → XP_015613603.1  polypyrimidine tract-binding protein homolog 3 isoform X1

      UniProtKB/TrEMBL
      A0A0P0VAZ5, Q0JHE8
      Conserved Domains (2) summary
      TIGR01649
      Location:4 → 460
      hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
      cl17169
      Location:99 → 186
      RRM_SF; RNA recognition motif (RRM) superfamily

    2. XM_015758112.3 → XP_015613598.1  polypyrimidine tract-binding protein homolog 3 isoform X1

      UniProtKB/TrEMBL
      A0A0P0VAZ5, Q0JHE8
      Conserved Domains (2) summary
      TIGR01649
      Location:4 → 460
      hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
      cl17169
      Location:99 → 186
      RRM_SF; RNA recognition motif (RRM) superfamily

    3. XM_015758123.3 → XP_015613609.1  polypyrimidine tract-binding protein homolog 3 isoform X2

      UniProtKB/TrEMBL
      A0A0P0VAZ5, B8A6Y2, Q0JHE8
      Conserved Domains (1) summary
      TIGR01649
      Location:4 → 438
      hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
    Nucleotide Protein
    Heading Accession and Version

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