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LOC9269006 putative DNA ligase 4 [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 9269006, updated on 16-Jul-2024

Summary

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Gene symbol
LOC9269006
Gene description
putative DNA ligase 4
Locus tag
OSNPB_040606450
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
LIG4
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Genomic context

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See LOC9269006 in Genome Data Viewer
Location:
chromosome: 4
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (31136151..31145265, complement)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (30629646..30638863, complement)

Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC112938581 Neighboring gene mannosyl-oligosaccharide 1,2-alpha-mannosidase MNS1 Neighboring gene uncharacterized membrane protein At1g16860 Neighboring gene uncharacterized LOC4336919

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

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 ATP binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables DNA ligase (ATP) activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in DNA biosynthetic process IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in DNA ligation involved in DNA repair IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in DNA recombination IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in double-strand break repair via nonhomologous end joining IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in nucleotide-excision repair, DNA gap filling IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
part_of DNA ligase IV complex IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
putative DNA ligase 4
Names
DNA ligase IV
LOC_Os04g51700
OSJNBa0035M09.8
Polydeoxyribonucleotide synthase [ATP] 4

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
    31136151..31145265 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_015781383.3 → XP_015636869.1  putative DNA ligase 4

    UniProtKB/TrEMBL
    Q01KE4
    Conserved Domains (3) summary
    TIGR00574
    Location:64 → 588
    dnl1; DNA ligase I, ATP-dependent (dnl1)
    pfam11411
    Location:748 → 779
    DNA_ligase_IV; DNA ligase IV
    cl00038
    Location:656 → 742
    BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q7X7E9.2 GenPept UniProtKB/Swiss-Prot:Q7X7E9

Gene LinkOut

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