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    LOC4337896 receptor-like protein kinase HERK 1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4337896, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4337896
    Gene description
    receptor-like protein kinase HERK 1
    Locus tag
    OSNPB_050162500
    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
    Broad expression in roots before flowering (RPKM 30.1), milk grains (RPKM 10.7) and 4 other tissues See more
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    Genomic context

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    See LOC4337896 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (3689078..3692672)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (3669824..3673769)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene transfer RNA arginine (anticodon UCG) Neighboring gene uncharacterized LOC9272304 Neighboring gene serine/arginine-rich splicing factor RS2Z32 Neighboring gene protein REVEILLE 8

    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
    2. 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
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables transmembrane receptor protein tyrosine kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in protein autophosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in plasmodesma IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    receptor-like protein kinase HERK 1
    Names
    Os05g0162500

    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_089039.1 Reference ASM3414082v1 Primary Assembly

      Range
      3689078..3692672
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015785040.3 → XP_015640526.1  receptor-like protein kinase HERK 1

      UniProtKB/TrEMBL
      A2Y0P8, B9FHP3, Q75IR9
      Conserved Domains (2) summary
      cd14066
      Location:511 → 776
      STKc_IRAK; Catalytic domain of the Serine/Threonine kinases, Interleukin-1 Receptor Associated Kinases and related STKs
      pfam12819
      Location:37 → 393
      Malectin_like; Carbohydrate-binding protein of the ER
    Nucleotide Protein
    Heading Accession and Version

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