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LOC4328993 TOM1-like protein 9 [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4328993, updated on 12-Jul-2024

Summary

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Gene symbol
LOC4328993
Gene description
TOM1-like protein 9
Locus tag
OSNPB_020273700
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
Expression
Broad expression in roots after flowering (RPKM 54.9), leaves after flowering (RPKM 38.3) and 5 other tissues See more
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Genomic context

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See LOC4328993 in Genome Data Viewer
Location:
chromosome: 2
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (10001591..10006909)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (9972647..9978053)

Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene D-amino-acid transaminase, chloroplastic Neighboring gene uncharacterized LOC136355328 Neighboring gene uncharacterized LOC107280188 Neighboring gene proteinaceous RNase P 1, chloroplastic/mitochondrial Neighboring gene uncharacterized LOC4328995

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 phosphatidylinositol binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables ubiquitin binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
TOM1-like protein 9
Names
Os02g0273700
P0413A11.12
P0521F09.39
TOM1-like protein 2
putative VHS domain-containing 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_089036.1 Reference ASM3414082v1 Primary Assembly

    Range
    10001591..10006909
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_015771446.2 → XP_015626932.1  TOM1-like protein 9

    UniProtKB/TrEMBL
    B8AFN4, B9F4Y4, Q6ESS3, Q6K7U3
    Conserved Domains (4) summary
    PHA03247
    Location:283 → 512
    PHA03247; large tegument protein UL36; Provisional
    pfam09606
    Location:433 → 607
    Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
    cd03561
    Location:3 → 132
    VHS; VHS (Vps27/Hrs/STAM) domain family
    cd14231
    Location:185 → 263
    GAT_GGA-like_plant; canonical GAT domain found in uncharacterized Golgi-localized gamma ear-containing Arf-binding protein (GGA)-like proteins mainly found in plants
Nucleotide Protein
Heading Accession and Version

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