U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    LOC4340017 uncharacterized LOC4340017 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4340017, updated on 12-Jul-2024

    Summary

    Go to the top of the page Help
    Gene symbol
    LOC4340017
    Gene description
    uncharacterized LOC4340017
    Locus tag
    OSNPB_060132600
    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
    Also known as
    134P10.6
    Expression
    Ubiquitous expression in flower buds (RPKM 2.5), flowers (RPKM 2.0) and 6 other tissues See more
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See LOC4340017 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (1911558..1918091, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (1754168..1761512, complement)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene magnesium protoporphyrin IX methyltransferase, chloroplastic Neighboring gene probable lysophospholipase BODYGUARD 3 Neighboring gene granule-bound starch synthase 1, chloroplastic/amyloplastic-like Neighboring gene uncharacterized LOC4340022

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. The Exonuclease Homolog OsRAD1 Promotes Accurate Meiotic Double-Strand Break Repair by Suppressing Nonhomologous End Joining. Hu Q, et al. Plant Physiol, 2016 Oct. PMID 27512017, Free PMC Article
    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

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by RefSeq

    Process Evidence Code Pubs
    involved_in DNA damage checkpoint signaling IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of checkpoint clamp complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    uncharacterized protein LOC4340017
    Names
    Os06g0132600
    P0679C08.22-1
    P0679C08.22-2
    Rad1-like protein

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      1911558..1918091 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015786096.3 → XP_015641582.1  uncharacterized protein LOC4340017 isoform X3

      UniProtKB/TrEMBL
      A3B832, B8B283, Q0DEV6, Q5VRP2
      Conserved Domains (1) summary
      cd00577
      Location:16 → 264
      PCNA; Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the ...

    2. XM_015786095.3 → XP_015641581.1  uncharacterized protein LOC4340017 isoform X2

      UniProtKB/TrEMBL
      A3B832
      Conserved Domains (1) summary
      cd00577
      Location:16 → 264
      PCNA; Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the ...

    3. XM_015786097.3 → XP_015641583.1  uncharacterized protein LOC4340017 isoform X4

      UniProtKB/TrEMBL
      A3B832
      Conserved Domains (2) summary
      cd00577
      Location:16 → 264
      PCNA; Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the ...
      pfam02144
      Location:20 → 264
      Rad1; Repair protein Rad1/Rec1/Rad17

    4. XM_015786094.3 → XP_015641580.1  uncharacterized protein LOC4340017 isoform X1

      UniProtKB/TrEMBL
      A0A0P0WSN1, A3B832, Q84ZY7, Q9FPC6
      Conserved Domains (1) summary
      cd00577
      Location:16 → 264
      PCNA; Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the ...
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials