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LOC4345969 beta-(1,2)-xylosyltransferase [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4345969, updated on 12-Jul-2024

Summary

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Gene symbol
LOC4345969
Gene description
beta-(1,2)-xylosyltransferase
Locus tag
OSNPB_080503800
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
Also known as
xt; RCN11; OsXylT; OJ1506_F01.30
Expression
Ubiquitous expression in leaves after flowering (RPKM 5.8), roots after flowering (RPKM 5.7) and 6 other tissues See more
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Genomic context

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See LOC4345969 in Genome Data Viewer
Location:
chromosome: 8
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 8 NC_089042.1 (25033356..25037459)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 8 NC_029263.1 (24887575..24891938)

Chromosome 8 - NC_089042.1Genomic Context describing neighboring genes Neighboring gene glycerophosphodiester phosphodiesterase GDPDL3 Neighboring gene tonoplast dicarboxylate transporter Neighboring gene uncharacterized LOC112939876 Neighboring gene uncharacterized LOC136351354 Neighboring gene zinc finger protein WIP2

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. A genetic and structural analysis of the N-glycosylation capabilities. Léonard R, et al. Plant Mol Biol, 2004 Jul. PMID 15604706
  2. 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
  3. 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
  4. 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 glycosyltransferase activity IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
beta-1,2-xylosyltransferase RCN11
Names
Beta-1,2-xylosyltransferase RCN11
LOC_Os08g39380
Protein REDUCED CULM NUMBER 11
putative beta 1,2-xylosyltransferase
NP_001409548.1

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_001422619.1 → NP_001409548.1  beta-1,2-xylosyltransferase RCN11

    Status: VALIDATED

    Source sequence(s)
    AJ621918, AK101954
    UniProtKB/Swiss-Prot
    Q6ZFH6, Q703H0, Q703H1

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_089042.1 Reference ASM3414082v1 Primary Assembly

    Range
    25033356..25037459
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6ZFH6.1 GenPept UniProtKB/Swiss-Prot:Q6ZFH6

Gene LinkOut

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Molecular Biology Databases
Research Materials