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    LOC4338487 cytosolic endo-beta-N-acetylglucosaminidase 1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4338487, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4338487
    Gene description
    cytosolic endo-beta-N-acetylglucosaminidase 1
    Locus tag
    OSNPB_050346500
    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 20.6), flowers (RPKM 18.9) and 6 other tissues See more
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    Genomic context

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    See LOC4338487 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (16404921..16411539, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (16312800..16319420, complement)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene 40S ribosomal protein S7-like Neighboring gene uncharacterized protein At5g01610 Neighboring gene LOB domain-containing protein 12 Neighboring gene transcription initiation factor TFIID subunit 7

    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 mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in protein deglycosylation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    cytosolic endo-beta-N-acetylglucosaminidase 1
    Names
    Os05g0346500

    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
      16404921..16411539 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015785021.3 → XP_015640507.1  cytosolic endo-beta-N-acetylglucosaminidase 1 isoform X2

      UniProtKB/TrEMBL
      A0A0P0WKZ6, B9FH05
      Conserved Domains (1) summary
      cd06547
      Location:95 → 404
      GH85_ENGase; Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with the ...

    2. XM_015785020.3 → XP_015640506.1  cytosolic endo-beta-N-acetylglucosaminidase 1 isoform X1

      UniProtKB/TrEMBL
      A0A0P0WKZ6
      Conserved Domains (1) summary
      pfam03644
      Location:115 → 391
      Glyco_hydro_85; Glycosyl hydrolase family 85
    Nucleotide Protein
    Heading Accession and Version

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