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LOC4348844 pre-mRNA-processing factor 19-like [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4348844, updated on 3-Apr-2024

Summary

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Gene symbol
LOC4348844
Gene description
pre-mRNA-processing factor 19-like
Locus tag
OSNPB_100466300
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
PRP19; PUB72; OsPUB72; OsJ_31829
Expression
Ubiquitous expression in flower buds (RPKM 75.9), leaves before flowering (RPKM 64.3) and 6 other tissues See more
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Genomic context

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See LOC4348844 in Genome Data Viewer
Location:
chromosome: 10
Exon count:
18
Annotation release Status Assembly Chr Location
102 current IRGSP-1.0 (GCF_001433935.1) 10 NC_029265.1 (17203586..17210654, complement)

Chromosome 10 - NC_029265.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4348842 Neighboring gene 54S ribosomal protein L19, mitochondrial Neighboring gene uncharacterized LOC4348845 Neighboring gene 60S ribosomal protein L23

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_029265.1 Chromosome 10 Reference IRGSP-1.0 Primary Assembly

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. Large-scale identification of expressed sequence tags involved in rice and rice blast fungus interaction. Jantasuriyarat C, et al. Plant Physiol, 2005 May. PMID 15888683, 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

Pathways from PubChem

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General gene information

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables protein binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables ubiquitin protein ligase 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 
involved_in mRNA splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in protein ubiquitination IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
part_of Prp19 complex IEA
Inferred from Electronic Annotation
more info
 PubMed 
part_of U2-type catalytic step 1 spliceosome IEA
Inferred from Electronic Annotation
more info
 PubMed 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
pre-mRNA-processing factor 19
Names
LOC_Os10g32880
OSJNBa0006L06.5
Plant U-box protein 72
RING-type E3 ubiquitin transferase PRP19
U-box domain-containing protein 72
XP_015614850.1

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_001423058.1 → NP_001409987.1  pre-mRNA-processing factor 19

    Status: VALIDATED

    Source sequence(s)
    AK064778, CB644792, CF303039, CF308938, CF308939, CI035681, CI626238
    UniProtKB/Swiss-Prot
    F4MGW6, Q7XDL9, Q9AV81

RefSeqs of Annotated Genomes: Oryza sativa Japonica Group Annotation Release 102 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference IRGSP-1.0 Primary Assembly

Genomic

  1. NC_029265.1 Reference IRGSP-1.0 Primary Assembly

    Range
    17203586..17210654 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_015759364.2 → XP_015614850.1  pre-mRNA-processing factor 19

    UniProtKB/Swiss-Prot
    Q9AV81
    Conserved Domains (4) summary
    cd00200
    Location:223 → 510
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:224 → 261
    7WD40; WD40 repeat [structural motif]
    cd16656
    Location:2 → 54
    RING-Ubox_PRP19; U-box domain, a modified RING finger, found in pre-mRNA-processing factor 19 (Prp19) and similar proteins
    pfam08606
    Location:67 → 131
    Prp19; Prp19/Pso4-like
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9AV81.1 GenPept UniProtKB/Swiss-Prot:Q9AV81

Gene LinkOut

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