FB2021_02, released April 13, 2021

Gene: Dmel\lncRNA:CR43440

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General Information
Symbol
Dmel\lncRNA:CR43440
Species
D. melanogaster
Name
long non-coding RNA:CR43440
Annotation Symbol
CR43440
Feature Type
lncRNA_gene
FlyBase ID
FBgn0263388
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
Sequence location
3R:28,593,488..28,594,283 [+]
Recombination map
3-96
RefSeq locus
NT_033777 REGION:28593488..28594283
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
GO Summary Ribbons
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:CR43440 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
    Comments on Gene Model

    Gene model reviewed during 5.53

    Gene model reviewed during 5.40

    Supported by strand-specific RNA-Seq data.

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

    Gene model reviewed during 5.54

    Sequence Ontology: Class of Gene
    lncRNA_gene
    nuclear_gene
    (FlyBase Genome Annotators, 2013)
    Transcript Data
    Annotated Transcripts
    Name
    FlyBase ID
    RefSeq ID
    Length (nt)
    lncRNA:CR43440-RB
    FBtr0344587
    NR_125283
    796
    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:CR43440 using the Feature Mapper tool.

      External Data
      Crossreferences
      Linkouts
      Expression Data
      Expression Summary Ribbons
      Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
      For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
      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

      GBrowse - Visual display of RNA-Seq signals

      View Dmel\lncRNA:CR43440 in GBrowse 2
      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
      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:CR43440
      Transgenic constructs containing regulatory region of lncRNA:CR43440
      Aberrations (Deficiencies and Duplications) ( 0 )
      Inferred from experimentation ( 0 )
      Inferred from location ( 0 )
      Phenotypes
      For more details about a specific phenotype click on the relevant allele symbol.
      Phenotype manifest in
      Allele
      Orthologs
      Downloads
      Download All DIOPT Orthologs
      Download All OrthoDB Orthologs
      Human Orthologs (via DIOPT v8.0)
      Homo sapiens (Human) (0)
      No records found.
      Model Organism Orthologs (via DIOPT v8.0)
      Mus musculus (laboratory mouse) (0)
      No records found.
      Rattus norvegicus (Norway rat) (0)
      No records found.
      Xenopus tropicalis (Western clawed frog) (0)
      No records found.
      Danio rerio (Zebrafish) (0)
      No records found.
      Caenorhabditis elegans (Nematode, roundworm) (0)
      No records found.
      Arabidopsis thaliana (thale-cress) (0)
      No records found.
      Saccharomyces cerevisiae (Brewer's yeast) (0)
      No records found.
      Schizosaccharomyces pombe (Fission yeast) (0)
      No records found.
      Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( None identified )
      No orthologies identified
      Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( None identified )
      No non-Drosophilid orthologies identified
      Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( None identified )
      No non-Dipteran orthologies identified
      Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( None identified )
      No non-Insect Arthropod orthologies identified
      Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( None identified )
      No non-Arthropod Metazoa orthologies identified
      Paralogs
      Downloads
      Download All DIOPT Paralogs
      Paralogs (via DIOPT v8.0)
      Drosophila melanogaster (Fruit fly) (0)
      No records found.
      Human Disease Associations
      FlyBase Human Disease Model Reports
        Disease Model Summary Ribbon
        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 v8.0 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
        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
        Genomic Location and Detailed Mapping Data
        Chromosome (arm)
        3R
        Recombination map
        3-96
        Cytogenetic map
        98D6-98D6
        Sequence location
        3R:28,593,488..28,594,283 [+]
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        98D6-98D6
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        Experimentally Determined Recombination Data
        Location

        3-96

        (FlyBase, 2016)

        3-93.8

        (Comeron et al., 2012)
        Left of (cM)
        Right of (cM)
        Notes
        Stocks and Reagents
        Stocks (0)
        Genomic Clones (18)
         

        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 GBrowse 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
                  GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
                  Antibody Information
                  Laboratory Generated Antibodies
                   
                  Commercially Available Antibodies
                   
                  Other Information
                  Relationship to Other Genes
                  Source for database identify of

                  Source for identity of: lncRNA:CR43440 CR43440

                  (FlyBase, 2009-)
                  Source for database merge of
                  Additional comments
                  Other Comments

                  Annotation CG43440 renamed CR43440 in release 5.54 of the genome annotation.

                  (FlyBase Genome Annotators, 2013)

                  New annotation (CG43440) in release 5.40 of the genome annotation.

                  (FlyBase Genome Annotators, 2011)
                  Origin and Etymology
                  Discoverer
                  Etymology
                  Identification
                  External Crossreferences and Linkouts ( 5 )
                  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
                  GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
                  KEGG Genes - Molecular building blocks of life in the genomic space.
                  Synonyms and Secondary IDs (4)
                  Reported As
                  Symbol Synonym
                  CG43440
                  (FlyBase Genome Annotators, 2011)
                  CR43440
                  (FlyBase Genome Annotators, 2013)
                  lncRNA:CR43440
                  Name Synonyms
                  long non-coding RNA:CR43440
                  Secondary FlyBase IDs
                    Datasets (0)
                    Study focus (0)
                    Experimental Role
                    Project
                    Project Type
                    Title
                    References (6)