U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    LOC9271204 zinc finger CCCH domain-containing protein 24 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 9271204, updated on 17-Jul-2024

    Summary

    Go to the top of the page Help
    Gene symbol
    LOC9271204
    Gene description
    zinc finger CCCH domain-containing protein 24
    Locus tag
    OSNPB_040105000
    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 9.6), leaves before flowering (RPKM 7.9) and 6 other tissues See more
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See LOC9271204 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (324551..332121)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (321286..329194)

    Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene chalcone synthase Neighboring gene caffeate O-methyltransferase-like protein 2 Neighboring gene uncharacterized LOC4334905 Neighboring gene uncharacterized LOC4334906

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    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

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables RNA methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    zinc finger CCCH domain-containing protein 24
    Names
    Os04g0105000

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_089038.1 Reference ASM3414082v1 Primary Assembly

      Range
      324551..332121
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015781510.3 → XP_015636996.1  zinc finger CCCH domain-containing protein 24 isoform X1

      UniProtKB/TrEMBL
      B9FD09, Q7XXI8
      Conserved Domains (5) summary
      COG2265
      Location:249 → 843
      TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
      cd00590
      Location:127 → 192
      RRM_SF; RNA recognition motif (RRM) superfamily
      pfam00642
      Location:52 → 83
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam13847
      Location:532 → 593
      Methyltransf_31; Methyltransferase domain
      cl17173
      Location:737 → 786
      AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...

    2. XM_026024882.2 → XP_025880667.1  zinc finger CCCH domain-containing protein 24 isoform X2

      UniProtKB/TrEMBL
      B9FD09, Q7XXI8
      Conserved Domains (2) summary
      COG2265
      Location:104 → 698
      TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
      cl17169
      Location:7 → 53
      RRM_SF; RNA recognition motif (RRM) superfamily
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials