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LOC4342038 uncharacterized LOC4342038 [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4342038, updated on 12-Jul-2024

Summary

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Gene symbol
LOC4342038
Gene description
uncharacterized LOC4342038
Locus tag
OSNPB_060711600
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_H12.6
Expression
Ubiquitous expression in mature seeds (RPKM 79.1), flower buds (RPKM 63.4) and 6 other tissues See more
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Genomic context

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See LOC4342038 in Genome Data Viewer
Location:
chromosome: 6
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (30955866..30958213)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (30087160..30089540)

Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4342036 Neighboring gene uncharacterized LOC4342037 Neighboring gene F-box/kelch-repeat protein SKIP25 Neighboring gene 21 kDa protein

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
  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

Component Evidence Code Pubs
part_of Prp19 complex IEA
Inferred from Electronic Annotation
more info
 PubMed 
part_of catalytic step 2 spliceosome IEA
Inferred from Electronic Annotation
more info
 PubMed 
part_of post-mRNA release spliceosomal complex IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
uncharacterized protein LOC4342038
Names
GCIP-interacting family protein-like
Os06g0711600
P0655A07.39
pre-mRNA-splicing factor syf2

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_089040.1 Reference ASM3414082v1 Primary Assembly

    Range
    30955866..30958213
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_066311382.1 → XP_066167479.1  uncharacterized protein LOC4342038 isoform X1

  2. XM_015789007.3 → XP_015644493.1  uncharacterized protein LOC4342038 isoform X2

    UniProtKB/TrEMBL
    Q0D9K8, Q5Z7Y7, Q5Z9F5
    Conserved Domains (1) summary
    pfam08231
    Location:186 → 333
    SYF2; SYF2 splicing factor
Nucleotide Protein
Heading Accession and Version

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