FB2024_02 , released April 23, 2024
Gene: Dmel\5SrRNA:CR33449
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General Information
Symbol
Dmel\5SrRNA:CR33449
Species
D. melanogaster
Name
5SrRNA:CR33449
Annotation Symbol
CR33449
Feature Type
cytosolic_rRNA_5S_gene
FlyBase ID
FBgn0053449
Gene Model Status
Current
Stock Availability
None publicly available
Gene Summary
Contribute a Gene Snapshot for this gene.
All Summaries
Key Links
Genomic Location
Cytogenetic map
56E2-56E2
Sequence location
Recombination map
2-90
RefSeq locus
NT_033778 REGION:19730670..19730804
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
Gene Ontology (GO) Annotations (4 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 structural constituent of ribosome
inferred from sequence model
(FlyBase Curators, 2011-)
inferred from electronic annotation with Rfam:RF00001
(RNAcentral, 2018-)
Biological Process (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
involved_in translation
inferred from sequence model
(FlyBase Curators, 2011-)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
located_in cytosolic ribosome
inferred from sequence model
(FlyBase Curators, 2011-)
located_in ribosome
inferred from electronic annotation with Rfam:RF00001
(RNAcentral, 2018-)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
    -
    Summaries
    Gene Model and Products
    Number of Transcripts
    1
    Number of Unique Polypeptides
    0

    Please see the JBrowse view of Dmel\5SrRNA:CR33449 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 URS000033214A)
    Experimentally Determined Structures
    Crossreferences
    Comments on Gene Model

    5SrRNA gene

    5SIII variant (FBrf0041596), plus additional single nucleotide change; may be inactive.

    Gene model annotation based on data in FBrf0041596.

    Sequence Ontology: Class of Gene
    cytosolic_rRNA_5S_gene
    (FlyBase Genome Annotators, 2004)
    gene_array_member
    (FlyBase Genome Annotators, 2004)
    nuclear_gene
    (FlyBase Genome Annotators, 2004)
    Transcript Data
    Annotated Transcripts
    Name
    FlyBase ID
    RefSeq ID
    Length (nt)
    5SrRNA:CR33449-RA
    FBtr0086441
    NR_001796
    135
    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\5SrRNA:CR33449 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\5SrRNA:CR33449 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 5SrRNA:CR33449
      Transgenic constructs containing regulatory region of 5SrRNA:CR33449
      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:5SrRNA:CR33449. 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
        Interactions Browser
        MIST Molecular Interaction Search Tool
        Summary of Genetic Interactions
        esyN Network Diagram
        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
        External Data
        Linkouts
        KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
        Genomic Location and Detailed Mapping Data
        Chromosome (arm)
        2R
        Recombination map
        2-90
        Cytogenetic map
        56E2-56E2
        Sequence location
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        56E2-56E2
        Limits computationally determined from genome sequence between P{PZ}sm05338&P{PZ}emm1 and P{lacW}l(2)k08002k08002 56F1
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        Experimentally Determined Recombination Data
        Location

        2-90

        (FlyBase, 2016)

        2-95.1

        (Comeron et al., 2012)
        Left of (cM)
        Right of (cM)
        Notes
        Stocks and Reagents
        Stocks (0)
        Genomic Clones (4)
         

        Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

        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

                      New annotation (CR33449) in release 3.2 of the genome annotation.

                      (FlyBase Genome Annotators, 2004)

                      5SIII variant (see FBrf0041596), plus additional single nucleotide change; may be inactive.

                      (FlyBase Genome Annotators, 2004)
                      Relationship to Other Genes
                      Source for database merge of
                      Member gene of
                      5SrRNA
                      Additional comments
                      Nomenclature History
                      Source for database identify of
                      Nomenclature comments
                      Etymology
                      Synonyms and Secondary IDs (2)
                      Reported As
                      Symbol Synonym
                      5SrRNA:CR33449
                      CR33449
                      Name Synonyms
                      5SrRNA:CR33449
                      Secondary FlyBase IDs
                        Datasets (0)
                        Study focus (0)
                        Experimental Role
                        Project
                        Project Type
                        Title
                        Study result (0)
                        Result
                        Result Type
                        Title
                        External Crossreferences and Linkouts ( 12 )
                        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.
                        RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
                        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
                        KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
                        References (5)