FB2024_03 , released June 25, 2024
Gene: Dmel\lncRNA:CR46257
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General Information
Symbol
Dmel\lncRNA:CR46257
Species
D. melanogaster
Name
long non-coding RNA:CR46257
Annotation Symbol
CR46257
Feature Type
FlyBase ID
FBgn0267990
Gene Model Status
Stock Availability
Gene Summary
Contribute a Gene Snapshot for this gene.
Key Links
Genomic Location
Cytogenetic map
Sequence location
Recombination map
2-61
RefSeq locus
NT_033778 REGION:9578905..9579271
Sequence
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
Function
Gene Ontology (GO) Annotations (0 terms)
Molecular Function (0 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Biological Process (0 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Cellular Component (0 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
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\lncRNA:CR46257 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
    Experimentally Determined Structures
    Crossreferences
    Comments on Gene Model

    Supported by strand-specific RNA-Seq data.

    Probable lncRNA gene; may encode small polypeptide(s).

    Gene model reviewed during 6.04

    Sequence Ontology: Class of Gene
    Transcript Data
    Annotated Transcripts
    Name
    FlyBase ID
    RefSeq ID
    Length (nt)
    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\lncRNA:CR46257 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).

      4.93

      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\lncRNA:CR46257 in JBrowse
      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
      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 lncRNA:CR46257
      Transgenic constructs containing regulatory region of lncRNA:CR46257
      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
        Human Orthologs (via DIOPT v9.1)
        Species\Gene Symbol
        Score
        Best Score
        Best Reverse Score
        Alignment
        Complementation?
        Transgene?
        Homo sapiens (Human) (0)
        Model Organism Orthologs (via DIOPT v9.1)
        Species\Gene Symbol
        Score
        Best Score
        Best Reverse Score
        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:lncRNA:CR46257. Refer to their site for version information.
        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
          External Data
          Linkouts
          Genomic Location and Detailed Mapping Data
          Chromosome (arm)
          2R
          Recombination map
          2-61
          Cytogenetic map
          Sequence location
          FlyBase Computed Cytological Location
          Cytogenetic map
          Evidence for location
          45F4-45F4
          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 (8)
           

          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 (CR46257) in release 6.04 of the genome annotation.

                        Relationship to Other Genes
                        Source for database merge of
                        Additional comments
                        Nomenclature History
                        Source for database identify of

                        Source for identity of: lncRNA:CR46257 CR46257

                        Nomenclature comments
                        Etymology
                        Synonyms and Secondary IDs (3)
                        Reported As
                        Symbol Synonym
                        lncRNA:CR46257
                        Name Synonyms
                        long non-coding RNA:CR46257
                        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 ( 9 )
                          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
                          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
                          References (4)