FB2025_01 , released February 20, 2025
Gene: Dmel\hpRNA:CR46343
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General Information
Symbol
Dmel\hpRNA:CR46343
Species
D. melanogaster
Name
hairpin RNA:CR46343
Annotation Symbol
CR46343
Feature Type
hpRNA_gene
FlyBase ID
FBgn0285993
Gene Model Status
Current
Stock Availability
2 publicly available
Gene Summary
Contribute a Gene Snapshot for this gene.
All Summaries
Also Known As

miR-997, mir-997-1

Key Links
Genomic Location
Cytogenetic map
92A2-92A2
Sequence location
Recombination map
3-66
RefSeq locus
NT_033777 REGION:19326954..19327168
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 (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\hpRNA:CR46343 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 URS00007BA026)
    Experimentally Determined Structures
    Crossreferences
    Comments on Gene Model

    Supported by strand-specific RNA-Seq data.

    Gene model based primarily on RNA hairpin predictions and siRNA identified by RNA-Seq, as described in Ruby et al., 2007 (FBrf0202916) and Wen et al., 2015 (FBrf0227265).

    Gene model reviewed during 6.17

    Annotated transcripts for this gene are not independently transcribed, but are proposed to derive from precursors generated by transcription of the overlapping gene, CR44175.

    Transcript Data
    Annotated Transcripts
    Name
    FlyBase ID
    RefSeq ID
    Length (nt)
    hpRNA:CR46343-RA
    FBtr0472838
    NR_048426
    215
    Additional Transcript Data and Comments
    Reported size (kB)
    Comments
    External Data
    Crossreferences
    miRBase - A searchable database of published miRNA sequences and annotation.
    Polypeptide Data
    Annotated Polypeptides
    Polypeptides with Identical Sequences

     

    Additional Polypeptide Data and Comments
    Reported size (kDa)
    Comments
    External Data
    Crossreferences
    Linkouts
    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\hpRNA:CR46343 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\hpRNA:CR46343 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 ( 4 )
    For All Alleles Carried on Transgenic Constructs Show
    Transgenic constructs containing/affecting coding region of hpRNA:CR46343
    Transgenic constructs containing regulatory region of hpRNA:CR46343
    Aberrations (Deficiencies and Duplications) ( 0 )
    Inferred from experimentation ( 0 )
    Inferred from location ( 4 )
    Variants
    Variant Molecular Consequences
    Alleles Representing Disease-Implicated Variants
    Phenotypes
    For more details about a specific phenotype click on the relevant allele symbol.
    Lethality
    Allele
    viable, with Scer\GAL4Act5C.PU
    viable, with Scer\GAL4Tub.PU
    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:hpRNA:CR46343. 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
      Show neighbor-neighbor interactions:
      Show/hide secondary interactors 
      (data from AllianceMine provided by esyN)
      Select Layout:
      Legend:
      Protein
      RNA
      Selected Interactor(s)
      Other Interaction Browsers
      View in FlyBase Interactions Browser   View in MIST tool (external link)
      Please see the Physical Interaction reports below for full details
      RNA-protein
      Physical Interaction
      Assay
      References
      hpRNA:CR46343 - AGO2
      anti tag coimmunoprecipitation, northern blot
      (Wen et al., 2015)
      RNA-RNA
      Physical Interaction
      Assay
      References
      hpRNA:CR46343 - CG15040
      sequence based prediction
      (Wen et al., 2015)
      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
      External Data
      Linkouts
      Class of Gene
      Genomic Location and Detailed Mapping Data
      Chromosome (arm)
      3R
      Recombination map
      3-66
      Cytogenetic map
      92A2-92A2
      Sequence location
      FlyBase Computed Cytological Location
      Cytogenetic map
      Evidence for location
      92A2-92A2
      Experimentally Determined Cytological Location
      Cytogenetic map
      Notes
      References
      Experimentally Determined Recombination Data
      Location

      3-66

      (FlyBase, 2016)

      3-67.6

      (Comeron et al., 2012)
      Left of (cM)
      Right of (cM)
      Notes
      Stocks and Reagents
      Stocks (2)
      Genomic Clones (26)
      cDNA Clones (3)
       

      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

                Annotation CR42969 eliminated in release 6.17 of the genome annotation.

                (FlyBase Genome Annotators, 2017)

                New annotation (CR46343) in release 6.17 of the genome annotation.

                (FlyBase Genome Annotators, 2017)

                New annotation CR42969 (which corresponds to mir-997) in release 5.31 of the genome annotation.

                (FlyBase Genome Annotators, 2010)
                Relationship to Other Genes
                Source for database merge of

                Source for merge of: CR46343 mir-997-1

                (Wen et al., 2015)
                Additional comments

                CR46343 replaces the withdrawn miRNA annotation CR42969 (mir-997-1).

                (FlyBase Genome Annotators, 2017)
                Nomenclature History
                Source for database identify of

                Source for identity of: mir-997-1 mir-997

                (Mohammed et al., 2014)

                Source for identity of: hpRNA:CR46343 CR46343

                (Wen et al., 2015)
                Nomenclature comments
                Etymology
                Synonyms and Secondary IDs (15)
                Reported As
                Symbol Synonym
                CR42969
                (FlyBase Genome Annotators, 2017, FlyBase Genome Annotators, 2010)
                CR46343
                (FlyBase Genome Annotators, 2017)
                dme-miR-997
                (Volin et al., 2018)
                dme-mir-997
                (He et al., 2022)
                dme-mir-997-1
                (Mohammed et al., 2014)
                hp-mir-997-1
                (Wen et al., 2015)
                hpRNA:CR46343
                miR-997
                (Suh et al., 2015, Van Vactor, 2015.6.15, Nesler et al., 2013, Ruby et al., 2007)
                miR-997-1
                (Bejarano et al., 2012)
                miR997
                (Zhang et al., 2010)
                mir-997
                (Schertel et al., 2012, FlyBase Genome Annotators, 2010)
                mir-997-1
                (Mohammed and Lai, 2016.2.8, Wen et al., 2015, FlyBase Genome Annotators, 2010)
                Name Synonyms
                hairpin RNA:CR46343
                mir-997 stem loop
                mir-997-1 stem loop
                Secondary FlyBase IDs
                • FBgn0262262
                • FBgn0285968
                Datasets (0)
                Study focus (0)
                Experimental Role
                Project
                Project Type
                Title
                Study result (0)
                Result
                Result Type
                Title
                External Crossreferences and Linkouts ( 10 )
                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)
                miRBase - A searchable database of published miRNA sequences and annotation.
                Linkouts
                FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
                References (22)