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    LOC4344088 uncharacterized LOC4344088 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4344088, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4344088
    Gene description
    uncharacterized LOC4344088
    Locus tag
    OSNPB_070644300
    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
    OJ1003_C06.135; OJ1458_B07.103
    Expression
    Ubiquitous expression in mature seeds (RPKM 22.7), flower buds (RPKM 16.4) and 6 other tissues See more
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    Genomic context

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    See LOC4344088 in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 7 NC_089041.1 (27046383..27051373, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 7 NC_029262.1 (26819292..26824258, complement)

    Chromosome 7 - NC_089041.1Genomic Context describing neighboring genes Neighboring gene bZIP transcription factor 60-like Neighboring gene uncharacterized LOC4344087 Neighboring gene uncharacterized LOC136357180 Neighboring gene uncharacterized LOC4344089

    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 protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in generation of catalytic spliceosome for first transesterification step IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of Prp19 complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of U2-type catalytic step 2 spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of post-mRNA release spliceosomal complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    uncharacterized protein LOC4344088
    Names
    Os07g0644300
    pre-mRNA-splicing factor SYF1
    putative adapter protein ATH-55

    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_089041.1 Reference ASM3414082v1 Primary Assembly

      Range
      27046383..27051373 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015792065.2 → XP_015647551.1  uncharacterized protein LOC4344088

      UniProtKB/TrEMBL
      A0A0P0X9Y1, A3BMR2, Q8LIB1
      Conserved Domains (1) summary
      COG5107
      Location:437 → 792
      RNA14; Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
    Nucleotide Protein
    Heading Accession and Version

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