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LOC9266087 DNA glycosylase/AP lyase ROS1 [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 9266087, updated on 12-Jul-2024

Summary

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Gene symbol
LOC9266087
Gene description
DNA glycosylase/AP lyase ROS1
Locus tag
OSNPB_040357850
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 1.6), leaves before flowering (RPKM 0.3) and 5 other tissues See more
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Genomic context

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See LOC9266087 in Genome Data Viewer
Location:
chromosome: 4
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (17449140..17456534)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (17100687..17108148)

Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107280771 Neighboring gene uncharacterized LOC4335571 Neighboring gene quinone-oxidoreductase QR1, chloroplastic Neighboring gene quinone-oxidoreductase QR1, chloroplastic Neighboring gene cytosolic sulfotransferase 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. 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
  2. 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 4 iron, 4 sulfur cluster binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables DNA N-glycosylase activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables DNA demethylase activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in DNA repair IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
DNA glycosylase/AP lyase ROS1
Names
Os04g0357850

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_089038.1 Reference ASM3414082v1 Primary Assembly

    Range
    17449140..17456534
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_015780538.3 → XP_015636024.1  DNA glycosylase/AP lyase ROS1

    Conserved Domains (2) summary
    pfam15628
    Location:921 → 1023
    RRM_DME; RRM in Demeter
    cl23768
    Location:555 → 733
    ENDO3c; endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Nucleotide Protein
Heading Accession and Version

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