FB2025_01 , released February 20, 2025
Gene: Dmel\mt:tRNA:Ser-TGA
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General Information
Symbol
Dmel\mt:tRNA:Ser-TGA
Species
D. melanogaster
Name
mitochondrial transfer RNA:Serine-TGA
Annotation Symbol
CR34091
Feature Type
tRNA_gene
FlyBase ID
FBgn0013706
Gene Model Status
Current
Stock Availability
None publicly available
Gene Summary
Contribute a Gene Snapshot for this gene.
All Summaries
Also Known As

tRNASer

Key Links
Genomic Location
Cytogenetic map
Sequence location
Recombination map
RefSeq locus
NC_024511 REGION:11638..11703
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
Function
Gene Ontology (GO) Annotations (5 terms)
Molecular Function (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
enables UCA codon-amino acid adaptor activity
inferred from sequence model
(Jühling et al., 2009)
Biological Process (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
involved_in mitochondrial translation
inferred from sequence model
(Marygold et al., 2022)
involved_in translation
inferred from sequence model
(Jühling et al., 2009)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
is_active_in mitochondrial matrix
inferred from sequence model
(Marygold et al., 2022)
located_in mitochondrion
inferred from sequence model
(Jühling et al., 2009)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
    -
    Summaries
    Gene Group (FlyBase)
    MITOCHONDRIAL TRANSFER RNAS -
    Transfer RNAs encoded by the mitochondrial genome (mt tRNAs) function as adaptor molecules in the translation of mitochondrially encoded polypeptides from mRNA by mitoribosomes. tRNAs are approximately 80 nucleotides in length and have two regions of fundamental functional importance: the anticodon, which is responsible for specific mRNA codon recognition, and the 3' end, to which the tRNA's cognate amino acid is attached. (Adapted from PMID:25734984 and PMID:26549858.)
    Gene Model and Products
    Number of Transcripts
    1
    Number of Unique Polypeptides
    0

    Please see the JBrowse view of Dmel\mt:tRNA:Ser-TGA for information on other features

    To submit a correction to a gene model please use the Contact FlyBase form

    Protein Domains (via Pfam)
    Isoform displayed:
    Pfam protein domains
    InterPro name
    classification
    start
    end
    Protein Domains (via SMART)
    Isoform displayed:
    SMART protein domains
    InterPro name
    classification
    start
    end
    Structure
    RNA 2D structure (Predicted by RNAcentral) (RNAcentral entry URS00002CEAA9)
    Experimentally Determined Structures
    Crossreferences
    Comments on Gene Model
    Transcript Data
    Annotated Transcripts
    Name
    FlyBase ID
    RefSeq ID
    Length (nt)
    mt:tRNA:Ser-TGA-RA
    FBtr0100885
    66
    Additional Transcript Data and Comments
    Reported size (kB)
    Comments
    External Data
    Crossreferences
    Sequences Consistent with the Gene Model
    Nucleotide / Polypeptide Records
      Mapped Features

      Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\mt:tRNA:Ser-TGA using the Feature Mapper tool.

      External Data
      Crossreferences
      Linkouts
      Expression Data
      Testis-specificity index

      The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

      NA

      Transcript Expression
      Additional Descriptive Data
      Marker for
       
      Subcellular Localization
      CV Term
      Polypeptide Expression
      Additional Descriptive Data
      Marker for
       
      Subcellular Localization
      CV Term
      Evidence
      References
      Expression Deduced from Reporters
      High-Throughput Expression Data
      Associated Tools

      JBrowse - Visual display of RNA-Seq signals

      View Dmel\mt:tRNA:Ser-TGA in JBrowse
      Bulk Downloads
      RNA-Seq RPKM values for all genes
      Reference
      See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
      Developmental Proteome: Life Cycle
      Developmental Proteome: Embryogenesis
      External Data and Images
      Linkouts
      DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
      EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
      FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
      Images
      FlyBase Wiki
      Image Based Resources
      Alleles, Insertions, Transgenic Constructs, and Aberrations
      Classical and Insertion Alleles ( 0 )
      For All Classical and Insertion Alleles Show
       
      Other relevant insertions
      Transgenic Constructs ( 0 )
      For All Alleles Carried on Transgenic Constructs Show
      Transgenic constructs containing/affecting coding region of mt:tRNA:Ser-TGA
      Transgenic constructs containing regulatory region of mt:tRNA:Ser-TGA
      Aberrations (Deficiencies and Duplications) ( 0 )
      Inferred from experimentation ( 0 )
      Inferred from location ( 0 )
        Variants
        Variant Molecular Consequences
        Alleles Representing Disease-Implicated Variants
        Phenotypes
        For more details about a specific phenotype click on the relevant allele symbol.
        Phenotype manifest in
        Allele
        Orthologs
        Downloads
        Download All DIOPT Orthologs
        Human Orthologs (via DIOPT v9.1)
        Species\Gene Symbol
        Score
        Best Score
        Best Reverse Score
        Source
        Compara
        Domainoid
        eggNOG
        Hieranoid
        Homologene
        Inparanoid
        OMA
        OrthoDB
        OrthoFinder
        OrthoInspector
        orthoMCL
        Panther
        Phylome
        SonicParanoid
        Alignment
        Complementation?
        Transgene?
        Homo sapiens (Human) (0)
        Model Organism Orthologs (via DIOPT v9.1)
        Species\Gene Symbol
        Score
        Best Score
        Best Reverse Score
        Source
        Compara
        Domainoid
        eggNOG
        Hieranoid
        Homologene
        Inparanoid
        OMA
        OrthoDB
        OrthoFinder
        OrthoInspector
        orthoMCL
        Panther
        Phylome
        SonicParanoid
        Alignment
        Complementation?
        Transgene?
        Rattus norvegicus (Norway rat) (0)
        Mus musculus (laboratory mouse) (0)
        Xenopus tropicalis (Western clawed frog) (0)
        Danio rerio (Zebrafish) (0)
        Caenorhabditis elegans (Nematode, roundworm) (0)
        Anopheles gambiae (African malaria mosquito) (0)
        Arabidopsis thaliana (thale-cress) (0)
        Saccharomyces cerevisiae (Brewer's yeast) (0)
        Schizosaccharomyces pombe (Fission yeast) (0)
        Escherichia coli (enterobacterium) (0)
        Other Organism Orthologs (via OrthoDB)
        Data provided directly from OrthoDB:mt:tRNA:Ser-TGA. Refer to their site for version information.
        Paralogs
        Downloads
        Download All DIOPT Paralogs
        Paralogs (via DIOPT v9.1)
        Human Disease Associations
        FlyBase Human Disease Model Reports
          Disease Ontology (DO) Annotations
          Models Based on Experimental Evidence ( 0 )
          Allele
          Disease
          Evidence
          References
          Potential Models Based on Orthology ( 0 )
          Human Ortholog
          Disease
          Evidence
          References
          Modifiers Based on Experimental Evidence ( 0 )
          Allele
          Disease
          Interaction
          References
          Disease Associations of Human Orthologs (via DIOPT v9.1 and OMIM)
          Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
          Homo sapiens (Human)
          Gene name
          Score
          OMIM
          OMIM Phenotype
          DO term
          Complementation?
          Transgene?
          Functional Complementation Data
          Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
          Interactions
          Summary of Physical Interactions
          esyN Network Diagram
          Other Interaction Browsers
          Summary of Genetic Interactions
          esyN Network Diagram
          Other Interaction Browsers
          Starting gene(s)
          Interaction type
          Interacting gene(s)
          Reference
          Starting gene(s)
          Interaction type
          Interacting gene(s)
          Reference
          External Data
          Linkouts
          Pathways
          Signaling Pathways (FlyBase)
          Metabolic Pathways
          FlyBase
          External Links
          FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel
          KEGG Metabolic Pathways - A collection of manually drawn metabolic pathway maps representing knowledge of molecular interaction, reaction and relation networks.
          External Data
          Linkouts
          KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
          Class of Gene
          Genomic Location and Detailed Mapping Data
          Chromosome (arm)
          mitochondrion_genome
          Recombination map
          Cytogenetic map
          Sequence location
          FlyBase Computed Cytological Location
          Cytogenetic map
          Evidence for location
          Experimentally Determined Cytological Location
          Cytogenetic map
          Notes
          References
          Experimentally Determined Recombination Data
          Location
          Left of (cM)
          Right of (cM)
          Notes
          Stocks and Reagents
          Stocks (0)
          Genomic Clones (0)
           
            cDNA Clones (0)
             

            Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see JBrowse for alignment of the cDNAs and ESTs to the gene model.

            cDNA clones, fully sequenced
            BDGP DGC clones
              Other clones
                Drosophila Genomics Resource Center cDNA clones

                For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

                  cDNA Clones, End Sequenced (ESTs)
                  BDGP DGC clones
                    Other clones
                      RNAi and Array Information
                      Linkouts
                      Antibody Information
                      Laboratory Generated Antibodies
                       
                      Commercially Available Antibodies
                       
                      Cell Line Information
                      Publicly Available Cell Lines
                       
                        Other Stable Cell Lines
                         
                          Other Comments

                          Amino acid: Ser. Anticodon: TGA.

                          (Jühling et al., 2009)

                          One of two mitochondrial Ser tRNAs.

                          (Jühling et al., 2009)

                          New annotation (CR34091) in release 4.3 of the genome annotation.

                          (FlyBase Genome Annotators, 2005)
                          Relationship to Other Genes
                          Source for database merge of
                          Additional comments
                          Nomenclature History
                          Source for database identify of

                          Source for identity of: mt:tRNA:Ser-TGA mt:tRNA:S:UCN

                          (Marygold, 2016.3.15)
                          Nomenclature comments
                          Etymology
                          Synonyms and Secondary IDs (12)
                          Reported As
                          Symbol Synonym
                          CR34091
                          (Göktaş et al., 2017, FlyBase Genome Annotators, 2005)
                          mt-tRNASer (UGA)
                          (Guitart et al., 2013)
                          mt:tRNA:S:UCN
                          mt:tRNA:Ser-TGA
                          (Marygold et al., 2022, Molla-Herman et al., 2020, Marygold, 2016.3.15)
                          mtdbD00006311
                          (Jühling et al., 2009)
                          tRNA-Ser
                          (Bratic et al., 2011)
                          tRNASer(UCN)
                          (Roberti et al., 2003)
                          tRNASer
                          (Bratic et al., 2016, Baggio et al., 2014)
                          tRNASerUGA
                          (Clemente et al., 2022)
                          Name Synonyms
                          mitochondrial serine UCN tRNA
                          mitochondrial transfer RNA:Serine-TGA
                          serineUCN tRNA
                          (Ballard, 2000)
                          Secondary FlyBase IDs
                          • FBgn0002867
                          Datasets (0)
                          Study focus (0)
                          Experimental Role
                          Project
                          Project Type
                          Title
                          Study result (0)
                          Result
                          Result Type
                          Title
                          External Crossreferences and Linkouts ( 17 )
                          Sequence Crossreferences
                          NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
                          GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
                          RNAcentral - A comprehensive ncRNA sequence collection representing all ncRNA types from a broad range of organisms
                          Other crossreferences
                          DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
                          EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
                          FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
                          FlyMine - An integrated database for Drosophila genomics
                          KEGG Genes - Molecular building blocks of life in the genomic space.
                          MARRVEL_MODEL - MARRVEL (model organism gene)
                          Linkouts
                          FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
                          FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel
                          KEGG Metabolic Pathways - A collection of manually drawn metabolic pathway maps representing knowledge of molecular interaction, reaction and relation networks.
                          KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
                          References (41)