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    LOC4329675 eukaryotic translation initiation factor 2D [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4329675, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4329675
    Gene description
    eukaryotic translation initiation factor 2D
    Locus tag
    OSNPB_020557600
    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
    Expression
    Ubiquitous expression in mature seeds (RPKM 22.5), flower buds (RPKM 11.3) and 6 other tissues See more
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    Genomic context

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    See LOC4329675 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (21594901..21601125, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (21115926..21122160, complement)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene auxin response factor 7-like Neighboring gene RING-H2 finger protein ATL58 Neighboring gene zinc finger CCCH domain-containing protein 16-like Neighboring gene NADPH-dependent pterin aldehyde reductase Neighboring gene two-component response regulator ORR2-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

    Function Evidence Code Pubs
    enables translation initiation factor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in formation of translation preinitiation complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in translational initiation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    eukaryotic translation initiation factor 2D
    Names
    OSJNBb0038F20.9
    Os02g0557600
    putative Ligatin (Hepatocellular carcinoma-associated antigen 56)

    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_001416673.1 → NP_001403602.1  eukaryotic translation initiation factor 2D

      Status: VALIDATED

      Source sequence(s)
      AK064926, AP014958, CI081394, CI406672, CI556833
      UniProtKB/TrEMBL
      B8ADX6, Q0E0D4, Q6YVX8

    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_089036.1 Reference ASM3414082v1 Primary Assembly

      Range
      21594901..21601125 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015770048.3 → XP_015625534.1  eukaryotic translation initiation factor 2D isoform X1

      UniProtKB/TrEMBL
      B8ADX6, Q0E0D4, Q6YVX8
      Conserved Domains (3) summary
      cd11608
      Location:515 → 598
      eIF2D_C; C-terminal domain of eIF2D and related proteins
      COG2016
      Location:6 → 178
      Tma20; Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis]
      cd21156
      Location:92 → 174
      PUA_eIF2d-like; PUA RNA-binding domain of eukaryotic translation initiation factor 2D and similar proteins
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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    Research Materials