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    LOC4344961 VIN3-like protein 2 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4344961, updated on 10-Oct-2024

    Summary

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    Gene symbol
    LOC4344961
    Gene description
    VIN3-like protein 2
    Locus tag
    OSNPB_080220600
    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 13.0), roots after flowering (RPKM 12.5) and 6 other tissues See more
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    Genomic context

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    See LOC4344961 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 (7390293..7399604, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 8 NC_029263.1 (7338828..7348115, complement)

    Chromosome 8 - NC_089042.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136351427 Neighboring gene probable pectinesterase/pectinesterase inhibitor 32 Neighboring gene uncharacterized LOC136351375 Neighboring gene uncharacterized LOC9267621

    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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in epigenetic regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in vernalization response IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    VIN3-like protein 2
    Names
    Os08g0220600
    P0691F12.23
    putative coiled-coil 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_089042.1 Reference ASM3414082v1 Primary Assembly

      Range
      7390293..7399604 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015794648.3 → XP_015650134.1  VIN3-like protein 2 isoform X5

      UniProtKB/TrEMBL
      B8BBY4
      Conserved Domains (1) summary
      pfam07227
      Location:136 → 256
      PHD_Oberon; PHD - plant homeodomain finger protein

    2. XM_015794647.3 → XP_015650133.1  VIN3-like protein 2 isoform X3

      UniProtKB/TrEMBL
      B8BBY4
      Conserved Domains (1) summary
      pfam07227
      Location:136 → 256
      PHD_Oberon; PHD - plant homeodomain finger protein

    3. XM_066303419.1 → XP_066159516.1  VIN3-like protein 2 isoform X2

    4. XM_066303418.1 → XP_066159515.1  VIN3-like protein 2 isoform X1

    5. XM_066303426.1 → XP_066159523.1  VIN3-like protein 2 isoform X7

    6. XM_015794651.3 → XP_015650137.1  VIN3-like protein 2 isoform X6

      UniProtKB/TrEMBL
      B8BBY4, B9FZN0, Q6Z2D6
      Conserved Domains (1) summary
      pfam07227
      Location:129 → 249
      PHD_Oberon; PHD - plant homeodomain finger protein

    7. XM_066303423.1 → XP_066159520.1  VIN3-like protein 2 isoform X4

    8. XM_066303425.1 → XP_066159522.1  VIN3-like protein 2 isoform X7

    9. XM_026027455.2 → XP_025883240.1  VIN3-like protein 2 isoform X6

      UniProtKB/TrEMBL
      B8BBY4, B9FZN0, Q6Z2D6
      Conserved Domains (1) summary
      pfam07227
      Location:129 → 249
      PHD_Oberon; PHD - plant homeodomain finger protein

    10. XM_066303421.1 → XP_066159518.1  VIN3-like protein 2 isoform X4

    11. XM_066303424.1 → XP_066159521.1  VIN3-like protein 2 isoform X7

    12. XM_015794649.3 → XP_015650135.1  VIN3-like protein 2 isoform X6

      UniProtKB/TrEMBL
      B8BBY4, B9FZN0, Q6Z2D6
      Conserved Domains (1) summary
      pfam07227
      Location:129 → 249
      PHD_Oberon; PHD - plant homeodomain finger protein

    13. XM_066303420.1 → XP_066159517.1  VIN3-like protein 2 isoform X4

    14. XM_066303422.1 → XP_066159519.1  VIN3-like protein 2 isoform X4

    Nucleotide Protein
    Heading Accession and Version

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