U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    LOC4343840 cytochrome P450 78A5 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4343840, updated on 10-Oct-2024

    Summary

    Go to the top of the page Help
    Gene symbol
    LOC4343840
    Gene description
    cytochrome P450 78A5
    Locus tag
    OSNPB_070603700
    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
    GE; CYP78A13
    Expression
    Biased expression in flower buds (RPKM 2.1), milk grains (RPKM 0.9) and 1 other tissue See more
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See LOC4343840 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 (24938648..24940669)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 7 NC_029262.1 (24713587..24715860)

    Chromosome 7 - NC_089041.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136357476 Neighboring gene putative methylesterase 11, chloroplastic Neighboring gene protein NRT1/ PTR FAMILY 8.3 Neighboring gene small ribosomal subunit protein mL104 (rPPR9)

    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. Variations in CYP78A13 coding region influence grain size and yield in rice. Xu F, et al. Plant Cell Environ, 2015 Apr. PMID 25255828
    2. GIANT EMBRYO encodes CYP78A13, required for proper size balance between embryo and endosperm in rice. Nagasawa N, et al. Plant J, 2013 Aug. PMID 23621326
    3. 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Variation in CYP78A13 coding region is responsible for the variation of grain yield.
      Title: Variations in CYP78A13 coding region influence grain size and yield in rice.
    2. The rice GIANT EMBRYO gene, which encodes CYP78A13, is essential for controlling the size balance between embryo and endosperm in rice.
      Title: GIANT EMBRYO encodes CYP78A13, required for proper size balance between embryo and endosperm in rice.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables heme binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables iron ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables monooxygenase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    cytochrome P450 78A5
    Names
    GIANT EMBRYO
    OSJNBb0039M16.32
    OSJNBb0040H10.5
    Os07g0603700
    phytochrome P450
    putative cytochrome P-450

    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_089041.1 Reference ASM3414082v1 Primary Assembly

      Range
      24938648..24940669
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015790749.3 → XP_015646235.2  cytochrome P450 78A5

      UniProtKB/TrEMBL
      Q0D4U4, Q6YVW3
    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