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    LOC4344566 zinc finger CCCH domain-containing protein 54-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4344566, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4344566
    Gene description
    zinc finger CCCH domain-containing protein 54-like
    Locus tag
    OSNPB_080126700
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    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
    OsC3H54; OsJ_024860; OJ1163_G08.18
    Expression
    Biased expression in roots after flowering (RPKM 98.2), leaves after flowering (RPKM 64.2) and 2 other tissues See more
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    Genomic context

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    See LOC4344566 in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 8 NC_089042.1 (1548007..1551815)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 8 NC_029263.1 (1536572..1540274)

    Chromosome 8 - NC_089042.1Genomic Context describing neighboring genes Neighboring gene glyceraldehyde-3-phosphate dehydrogenase 1, cytosolic-like Neighboring gene uncharacterized LOC4344565 Neighboring gene uncharacterized LOC9271325 Neighboring gene uncharacterized LOC107277934

    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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    Markers

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    zinc finger CCCH domain-containing protein 54
    Names
    LOC_Os08g03310
    putative RNA recognition motif (RRM)-containing protein

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001422891.1 → NP_001409820.1  zinc finger CCCH domain-containing protein 54

      Status: VALIDATED

      Source sequence(s)
      AK111805, AK111902, CI700777
      UniProtKB/TrEMBL
      A0A0P0XBW0, B7F483

    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_089042.1 Reference ASM3414082v1 Primary Assembly

      Range
      1548007..1551815
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066312841.1 → XP_066168938.1  zinc finger CCCH domain-containing protein 54 isoform X4

    2. XM_015792696.3 → XP_015648182.1  zinc finger CCCH domain-containing protein 54 isoform X1

      UniProtKB/Swiss-Prot
      Q6ZK57
      UniProtKB/TrEMBL
      A0A0P0XBW0
      Conserved Domains (2) summary
      pfam16131
      Location:266 → 285
      Torus; Torus domain
      cd12458
      Location:424 → 493
      RRM_AtC3H46_like; RNA recognition motif (RRM) found in Arabidopsis thaliana zinc finger CCCH domain-containing protein 46 (AtC3H46) and similar proteins

    3. XM_015792697.3 → XP_015648183.1  zinc finger CCCH domain-containing protein 54 isoform X2

      UniProtKB/TrEMBL
      A0A0P0XBW0
      Conserved Domains (3) summary
      COG0724
      Location:436 → 605
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      pfam16131
      Location:266 → 285
      Torus; Torus domain
      cd12458
      Location:424 → 493
      RRM_AtC3H46_like; RNA recognition motif (RRM) found in Arabidopsis thaliana zinc finger CCCH domain-containing protein 46 (AtC3H46) and similar proteins

    4. XM_066312839.1 → XP_066168936.1  zinc finger CCCH domain-containing protein 54 isoform X3

    5. XM_066312842.1 → XP_066168939.1  zinc finger CCCH domain-containing protein 54 isoform X5

    6. XM_066312840.1 → XP_066168937.1  zinc finger CCCH domain-containing protein 54 isoform X4

    RNA

    1. XR_001547878.3 RNA Sequence

    2. XR_001547879.3 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6ZK57.2 GenPept UniProtKB/Swiss-Prot:Q6ZK57

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