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LOC4343275 nucleoside diphosphate kinase 1-like [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4343275, updated on 3-Apr-2024

Summary

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Gene symbol
LOC4343275
Gene description
nucleoside diphosphate kinase 1-like
Locus tag
OSNPB_070492000
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
NDKR; OsNDPK1; OsJ_023347; OJ1218_C12.24
Expression
Ubiquitous expression in flowers (RPKM 871.2), flower buds (RPKM 684.1) and 6 other tissues See more
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Genomic context

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Location:
chromosome: 7
Exon count:
4
Annotation release Status Assembly Chr Location
102 current IRGSP-1.0 (GCF_001433935.1) 7 NC_029262.1 (18335058..18337495, complement)

Chromosome 7 - NC_029262.1Genomic Context describing neighboring genes Neighboring gene cytochrome P450 716B1 Neighboring gene monooxygenase 2 Neighboring gene ATP-dependent DNA helicase SRS2-like protein At4g25120 Neighboring gene ubiquitin-60S ribosomal protein L40 Neighboring gene uncharacterized LOC107281778

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_029262.1 Chromosome 7 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. Crystal structure of nucleoside diphosphate kinase required for coleoptile elongation in rice (Oryza sativa L.). Huang JY, et al. J Struct Biol, 2005 Jun. PMID 15890279
  2. Enhanced expression of a gene encoding a nucleoside diphosphate kinase 1 (OsNDPK1) in rice plants upon infection with bacterial pathogens. Cho SM, et al. Mol Cells, 2004 Dec 31. PMID 15650338
  3. 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

What's a GeneRIF?
  1. Crystal structure of nucleoside diphosphate kinase required for coleoptile elongation in rice
    Title: Crystal structure of nucleoside diphosphate kinase required for coleoptile elongation in rice (Oryza sativa L.).
  2. OsNDPK1 expression in rice plants is enhanced upon infection with bacterial pathogens
    Title: Enhanced expression of a gene encoding a nucleoside diphosphate kinase 1 (OsNDPK1) in rice plants upon infection with bacterial pathogens.
Submit: New GeneRIF Correction

General gene information

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables nucleoside diphosphate kinase activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in CTP biosynthetic process IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in GTP biosynthetic process IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in UTP biosynthetic process IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
nucleoside diphosphate kinase 1
Names
LOC_Os07g30970
NDK I
NDP kinase I
NDPK I
NUCLEOSIDE DIPHOSPHATE KINASE I
P0038F10.104
XP_015647142.1

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_001403060.1 → NP_001389989.1  nucleoside diphosphate kinase 1

    Status: VALIDATED

    Source sequence(s)
    CF279435, CF331261
    UniProtKB/Swiss-Prot
    A0A0P0X6I2, Q07661, Q0D6C7, Q6DQV1, Q6ZHK3

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_029262.1 Reference IRGSP-1.0 Primary Assembly

    Range
    18335058..18337495 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_015791656.2 → XP_015647142.1  nucleoside diphosphate kinase 1

    UniProtKB/Swiss-Prot
    Q07661
    Conserved Domains (1) summary
    cd04413
    Location:2 → 131
    NDPk_I; Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside ...
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q07661.1 GenPept UniProtKB/Swiss-Prot:Q07661

Gene LinkOut

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Molecular Biology Databases
Research Materials