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    LOC4334027 probable NOT transcription complex subunit VIP2 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4334027, updated on 1-Aug-2024

    Summary

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    Gene symbol
    LOC4334027
    Gene description
    probable NOT transcription complex subunit VIP2
    Locus tag
    OSNPB_030736000
    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 leaves before flowering (RPKM 21.5), flower buds (RPKM 20.5) and 6 other tissues See more
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    Genomic context

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    See LOC4334027 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (31039572..31056492, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (30157012..30173946, complement)

    Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene beta-fructofuranosidase, insoluble isoenzyme 3 Neighboring gene glycerol-3-phosphate acyltransferase RAM2 Neighboring gene small nucleolar RNA snoR35 Neighboring gene pentatricopeptide repeat-containing protein At1g77405 Neighboring gene endoglucanase 10-like

    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

    Process Evidence Code Pubs
    involved_in nuclear-transcribed mRNA poly(A) tail shortening IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of CCR4-NOT core complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in P-body IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    probable NOT transcription complex subunit VIP2
    Names
    Os03g0736000

    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_089037.1 Reference ASM3414082v1 Primary Assembly

      Range
      31039572..31056492 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066308677.1 → XP_066164774.1  probable NOT transcription complex subunit VIP2 isoform X3

      UniProtKB/TrEMBL
      B8AR36

    2. XM_066308676.1 → XP_066164773.1  probable NOT transcription complex subunit VIP2 isoform X2

      UniProtKB/TrEMBL
      B8AR36, Q10D98

    3. XM_015774967.3 → XP_015630453.1  probable NOT transcription complex subunit VIP2 isoform X2

      UniProtKB/TrEMBL
      B8AR36, Q10D98
      Conserved Domains (2) summary
      pfam04153
      Location:483 → 604
      NOT2_3_5; NOT2 / NOT3 / NOT5 family
      cl11081
      Location:28 → 250
      dermokine

    4. XM_015774966.3 → XP_015630452.1  probable NOT transcription complex subunit VIP2 isoform X1

      UniProtKB/TrEMBL
      B8AR36
      Conserved Domains (2) summary
      pfam04153
      Location:484 → 605
      NOT2_3_5; NOT2 / NOT3 / NOT5 family
      cl11081
      Location:28 → 250
      dermokine

    5. XM_015774964.3 → XP_015630450.1  probable NOT transcription complex subunit VIP2 isoform X1

      UniProtKB/TrEMBL
      B8AR36
      Conserved Domains (2) summary
      pfam04153
      Location:484 → 605
      NOT2_3_5; NOT2 / NOT3 / NOT5 family
      cl11081
      Location:28 → 250
      dermokine
    Nucleotide Protein
    Heading Accession and Version

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