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    LOC4343146 endo-1,4-beta-xylanase 1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4343146, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4343146
    Gene description
    endo-1,4-beta-xylanase 1
    Locus tag
    OSNPB_070456700
    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 flowers (RPKM 11.4), flower buds (RPKM 9.9) and 6 other tissues See more
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    Genomic context

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    See LOC4343146 in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 7 NC_089041.1 (16048597..16055897)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 7 NC_029262.1 (15883888..15891190)

    Chromosome 7 - NC_089041.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4343144 Neighboring gene phosphatidylinositol/phosphatidylcholine transfer protein SFH11 Neighboring gene uncharacterized LOC4343147 Neighboring gene uncharacterized LOC107275504

    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
    • 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 hydrolase activity, hydrolyzing O-glycosyl compounds IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in carbohydrate metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    endo-1,4-beta-xylanase 1
    Names
    OSJNBa0027N13.120
    Os07g0456700
    putative 1,4-beta-D xylan xylanohydrolase

    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_089041.1 Reference ASM3414082v1 Primary Assembly

      Range
      16048597..16055897
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_026026956.2 → XP_025882741.1  endo-1,4-beta-xylanase 1 isoform X3

      UniProtKB/TrEMBL
      A0A0P0X630, Q84YR7
      Conserved Domains (2) summary
      smart00633
      Location:863 → 1108
      Glyco_10; Glycosyl hydrolase family 10
      pfam02018
      Location:288 → 428
      CBM_4_9; Carbohydrate binding domain

    2. XM_066312460.1 → XP_066168557.1  endo-1,4-beta-xylanase 1 isoform X1

    3. XM_015791916.3 → XP_015647402.3  endo-1,4-beta-xylanase 1 isoform X4

    4. XM_066312462.1 → XP_066168559.1  endo-1,4-beta-xylanase 1 isoform X2

    5. XM_066312463.1 → XP_066168560.1  endo-1,4-beta-xylanase 1 isoform X2

    6. XM_066312461.1 → XP_066168558.1  endo-1,4-beta-xylanase 1 isoform X1

    Nucleotide Protein
    Heading Accession and Version

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