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    LOC4334685 squamosa promoter-binding-like protein 6 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4334685, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4334685
    Gene description
    squamosa promoter-binding-like protein 6
    Locus tag
    OSNPB_030833300
    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
    SPL6; OsJ_13251
    Expression
    Ubiquitous expression in flowers (RPKM 29.1), roots before flowering (RPKM 28.6) and 6 other tissues See more
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    Genomic context

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    See LOC4334685 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (35980865..35988536, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (35008219..35015724, complement)

    Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene short-chain dehydrogenase reductase 5 Neighboring gene tRNA:m(4)X modification enzyme TRM13-like Neighboring gene uncharacterized LOC136355739 Neighboring gene uncharacterized LOC4334687 Neighboring gene probable RNA 3'-terminal phosphate cyclase-like protein

    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. SPL6 represses signalling outputs of ER stress in control of panicle cell death in rice. Wang QL, et al. Nat Plants, 2018 May. PMID 29632394
    2. Large-scale identification of expressed sequence tags involved in rice and rice blast fungus interaction. Jantasuriyarat C, et al. Plant Physiol, 2005 May. PMID 15888683, Free PMC Article
    3. 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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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    squamosa promoter-binding-like protein 6
    Names
    LOC_Os03g61760
    OSJNBa0078D06.37
    OSJNBa0096I06.31

    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_001418978.1 → NP_001405907.1  squamosa promoter-binding-like protein 6

      Status: VALIDATED

      Source sequence(s)
      AK065741, AK069847, AK121030, CB676196
      UniProtKB/Swiss-Prot
      B9F7F8, Q75LH6, Q7Y147
      UniProtKB/TrEMBL
      A0A0P0W540

    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_089037.1 Reference ASM3414082v1 Primary Assembly

      Range
      35980865..35988536 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015776026.3 → XP_015631512.1  squamosa promoter-binding-like protein 6 isoform X1

      UniProtKB/TrEMBL
      A0A0P0W540
      Conserved Domains (4) summary
      cd00204
      Location:736 → 836
      ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
      pfam03110
      Location:152 → 226
      SBP; SBP domain
      pfam13857
      Location:764 → 825
      Ank_5; Ankyrin repeats (many copies)
      sd00045
      Location:774 → 815
      ANK; ANK repeat [structural motif]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q75LH6.1 GenPept UniProtKB/Swiss-Prot:Q75LH6

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