U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    LOC4332849 probable E3 ubiquitin-protein ligase RHC1A [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4332849, updated on 13-Jul-2024

    Summary

    Go to the top of the page Help
    Gene symbol
    LOC4332849
    Gene description
    probable E3 ubiquitin-protein ligase RHC1A
    Locus tag
    OSNPB_030351800
    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 roots after flowering (RPKM 20.0), leaves after flowering (RPKM 16.4) 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 LOC4332849 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (13253738..13257136, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (13199021..13201330, complement)

    Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene transfer RNA proline (anticodon UGG) Neighboring gene uncharacterized LOC4332848 Neighboring gene SAC3 family protein C Neighboring gene nucleolar protein 56

    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 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. 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

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables ubiquitin protein ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in protein ubiquitination 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

    Go to the top of the page Help
    Preferred Names
    probable E3 ubiquitin-protein ligase RHC1A
    Names
    Os03g0351800

    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_089037.1 Reference ASM3414082v1 Primary Assembly

      Range
      13253738..13257136 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015777516.3 → XP_015633002.1  probable E3 ubiquitin-protein ligase RHC1A

      UniProtKB/TrEMBL
      A3AHX9, Q10LG3
      Conserved Domains (2) summary
      cd16667
      Location:187 → 228
      RING-H2_RNF126_like; RING finger, H2 subclass, found in RING finger proteins RNF126, RNF115, and similar proteins
      pfam14369
      Location:6 → 37
      zinc_ribbon_9; zinc-ribbon

    2. XM_015777517.3 → XP_015633003.1  probable E3 ubiquitin-protein ligase RHC1A

      UniProtKB/TrEMBL
      A3AHX9, Q10LG3
      Conserved Domains (2) summary
      cd16667
      Location:187 → 228
      RING-H2_RNF126_like; RING finger, H2 subclass, found in RING finger proteins RNF126, RNF115, and similar proteins
      pfam14369
      Location:6 → 37
      zinc_ribbon_9; zinc-ribbon

    RNA

    1. XR_010740037.1 RNA Sequence

    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