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    LOC4344241 uncharacterized LOC4344241 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4344241, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4344241
    Gene description
    uncharacterized LOC4344241
    Locus tag
    OSNPB_070670600
    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 flower buds (RPKM 30.7), leaves after flowering (RPKM 21.6) and 6 other tissues See more
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    Genomic context

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    See LOC4344241 in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 7 NC_089041.1 (28580391..28582585)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 7 NC_029262.1 (28352543..28354782)

    Chromosome 7 - NC_089041.1Genomic Context describing neighboring genes Neighboring gene autophagy-related protein 18a Neighboring gene autophagy-related protein 18a Neighboring gene transfer RNA glycine (anticodon CCC) Neighboring gene uncharacterized LOC9268710

    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 RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in ribosomal large subunit biogenesis IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in ribosome assembly IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of preribosome, large subunit precursor IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    uncharacterized protein LOC4344241
    Names
    60S ribosome subunit biogenesis protein NIP7 homolog
    Os07g0670600
    P0470D12.109
    putative 60S ribosome subunit biogenesis 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_089041.1 Reference ASM3414082v1 Primary Assembly

      Range
      28580391..28582585
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015789588.3 → XP_015645074.1  uncharacterized protein LOC4344241

      UniProtKB/TrEMBL
      A0A0P0XAF5, A2YPT0, A3BN99, Q8H478
      Conserved Domains (2) summary
      cd21146
      Location:2 → 96
      Nip7_N_euk; N-terminal domain of eukaryotic 60S ribosome subunit biogenesis protein Nip7 and similar proteins
      cd21151
      Location:104 → 180
      PUA_Nip7-like; PUA RNA binding domain of ribosome assembly factor Nip7 and similar proteins
    Nucleotide Protein
    Heading Accession and Version

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