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    LOC4324278 tRNase Z TRZ3, mitochondrial [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4324278, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4324278
    Gene description
    tRNase Z TRZ3, mitochondrial
    Locus tag
    OSNPB_010232300
    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
    vhs1
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    Genomic context

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    See LOC4324278 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (7336133..7350229)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (7325068..7339207)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene probable aquaporin TIP4-2 Neighboring gene protein JINGUBANG Neighboring gene putative ubiquitin-conjugating enzyme E2 38 Neighboring gene histidinol dehydrogenase, chloroplastic-like

    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. Development of an efficient method for the isolation of factors involved in gene transcription during rice embryo development. Ye R, et al. Plant J, 2004 Apr. PMID 15078336
    2. 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
    3. 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
    4. 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 3'-tRNA processing endoribonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    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 mitochondrial tRNA 3'-end processing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in mitochondrion IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in trans-Golgi network membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    protein MODIFIED TRANSPORT TO THE VACUOLE 1; tRNase Z TRZ3, mitochondrial
    Names
    Os01g0232300
    Os01g0232400
    P0431F01.34
    putative VHS1 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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      7336133..7350229
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015757095.2 → XP_015612581.1  tRNase Z TRZ3, mitochondrial isoform X2

      Conserved Domains (4) summary
      COG1234
      Location:614 → 930
      ElaC; Ribonuclease BN, tRNA processing enzyme [Translation, ribosomal structure and biogenesis]
      cd07718
      Location:617 → 864
      RNaseZ_ELAC1_ELAC2-C-term-like_MBL-fold; Ribonuclease Z ELAC1, C-terminus of ELAC2, and related proteins; MBL-fold metallo-hydrolase domain
      cl02544
      Location:963 → 1027
      VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal ...
      cl23716
      Location:138 → 366
      metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain

    2. XM_026024174.2 → XP_025879959.1  protein MODIFIED TRANSPORT TO THE VACUOLE 1 isoform X1

      UniProtKB/TrEMBL
      A0A0N7KCL9, B8AB14, Q5NB64
      Conserved Domains (1) summary
      cd03572
      Location:13 → 131
      ENTH_like_Tepsin; Epsin N-Terminal Homology (ENTH)-like domain of AP-4 complex accessory subunit Tepsin and similar domains
    Nucleotide Protein
    Heading Accession and Version

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