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LOC4345619 DNA repair protein RAD4 [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4345619, updated on 12-Jul-2024

Summary

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Gene symbol
LOC4345619
Gene description
DNA repair protein RAD4
Locus tag
OSNPB_080427500
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
OJ1663_D06.8
Expression
Ubiquitous expression in flower buds (RPKM 7.8), flowers (RPKM 6.0) and 6 other tissues See more
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Genomic context

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See LOC4345619 in Genome Data Viewer
Location:
chromosome: 8
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 8 NC_089042.1 (20696275..20703361)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 8 NC_029263.1 (20559021..20566218)

Chromosome 8 - NC_089042.1Genomic Context describing neighboring genes Neighboring gene vacuolar fusion protein CCZ1 homolog Neighboring gene transfer RNA glycine (anticodon CCC) Neighboring gene probable inactive receptor kinase RLK902 Neighboring gene probable histone H2A.3

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. 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

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables damaged DNA binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables single-stranded DNA binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in mismatch repair IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in nucleotide-excision repair IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
part_of XPC complex IEA
Inferred from Electronic Annotation
more info
 PubMed 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 PubMed 
part_of nucleotide-excision repair factor 2 complex IEA
Inferred from Electronic Annotation
more info
 PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
DNA repair protein RAD4
Names
OSJNBb0032E15.115
Os08g0427500
putative xeroderma pigmentosum group C protein

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_089042.1 Reference ASM3414082v1 Primary Assembly

    Range
    20696275..20703361
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_015794413.3 → XP_015649899.1  DNA repair protein RAD4

    UniProtKB/TrEMBL
    Q0J5K8, Q7EY71
    Conserved Domains (5) summary
    TIGR00605
    Location:146 → 795
    rad4; DNA repair protein rad4
    pfam03835
    Location:413 → 553
    Rad4; Rad4 transglutaminase-like domain
    pfam10403
    Location:558 → 607
    BHD_1; Rad4 beta-hairpin domain 1
    pfam10404
    Location:612 → 674
    BHD_2; Rad4 beta-hairpin domain 2
    pfam10405
    Location:681 → 753
    BHD_3; Rad4 beta-hairpin domain 3
Nucleotide Protein
Heading Accession and Version

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