FB2022_03, released June 9, 2022

Gene: Dmel\mir-306

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General Information
Symbol
Dmel\mir-306
Species
D. melanogaster
Name
mir-306 stem loop
Annotation Symbol
CR42914
Feature Type
miRNA_gene
FlyBase ID
FBgn0262386
Gene Model Status
Current
Stock Availability
4 publicly available
Gene Summary
Contribute a Gene Snapshot for this gene.
All Summaries
Also Known As

dme-mir-306, mir-306S

Key Links
Genomic Location
Cytogenetic map
Sequence location
Recombination map
2-52
RefSeq locus
NT_033779 REGION:16698404..16698488
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 (5 terms)
Molecular Function (2 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
enables mRNA 3'-UTR binding
inferred from direct assay
(Simoes da Silva et al., 2019)
enables mRNA base-pairing post-transcriptional repressor activity
inferred from direct assay
(Simoes da Silva et al., 2019, Eun et al., 2013)
Terms Based on Predictions or Assertions (0 terms)
Biological Process (3 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
involved_in male germ-line stem cell population maintenance
inferred from direct assay
(Eun et al., 2013)
involved_in miRNA-mediated gene silencing
inferred from direct assay
(Simoes da Silva et al., 2019, Eun et al., 2013)
involved_in wing disc development
inferred from genetic interaction with FLYBASE:ab; FB:FBgn0264442
(Simoes da Silva et al., 2019)
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
    3
    Number of Unique Polypeptides
    0

    Please see the JBrowse view of Dmel\mir-306 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 New Section
    Comments on Gene Model

    Locations and structures of miRNA models as mapped by miRBase (FBrf0220601).

    Conserved: found throughout the Drosophila genus (FBrf0230987).

    Sequence Ontology: Class of Gene
    miRNA_gene
    (FlyBase Genome Annotators, 2010, Stark et al., 2003, Stark et al., 2003)
    nuclear_gene
    (FlyBase Genome Annotators, 2010, Stark et al., 2003, Stark et al., 2003)
    Transcript Data
    Annotated Transcripts
    Name
    FlyBase ID
    RefSeq ID
    Length (nt)
    mir-306-RA
    FBtr0304248
    NR_047970
    22
    mir-306-RB
    FBtr0304249
    NR_047971
    22
    mir-306-RM
    FBtr0304247
    NR_047969
    85
    Additional Transcript Data and Comments
    Reported size (kB)
    Comments
    External Data
    Crossreferences
    miRBase - A searchable database of published miRNA sequences and annotation.
    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\mir-306 using the Feature Mapper tool.

      External Data
      Crossreferences
      Linkouts
      Expression Data
      Expression Summary Ribbons
      Colored tiles in ribbon indicate that the Fly Cell Atlas project found the gene expressed in that cell type. Darker colors mean that more cells of that cell type express the gene:
       low
      high 
      Colorless tiles indicate that there is no scRNAseq data for the gene in that cell type.
      Colored tiles in ribbon indicate that expression data (RNA and/or protein) has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
      Colored tiles in the ribbon indicate the average RNA expression level of the gene at the indicated stages:
       low
      high 
      as determined by RNA-seq (RPKM) using whole organism samples modENCODE, Brown et al., 2014. 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\mir-306 in GBrowse 2
      RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
      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 ( 10 )
      For All Alleles Carried on Transgenic Constructs Show
      Transgenic constructs containing/affecting coding region of mir-306
      Transgenic constructs containing regulatory region of mir-306
      Aberrations (Deficiencies and Duplications) ( 1 )
      Inferred from experimentation ( 1 )
      Gene disrupted in
      Df(2L)mir-306-79-9b-KO
      (Chen et al., 2014)
      Inferred from location ( 0 )
      Alleles Representing Disease-Implicated Variants
      Phenotypes
      Orthologs
      Downloads
      Download All DIOPT 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.
      Other Organism Orthologs (via OrthoDB)
      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
        Show neighbor-neighbor interactions:
        Select Layout:
        Legend:
        Protein
        RNA
        Selected Interactor(s)
        Interactions Browser
        View in Interactions Browser
        Please see the Physical Interaction reports below for full details
        RNA-protein
        Physical Interaction
        Assay
        References
        mir-306 - Fmr1
        anti bait coimmunoprecipitation, quantitative reverse transcription pcr
        (Yang et al., 2009)
        Summary of Genetic Interactions
        esyN Network Diagram
        esyN Network Key:
        Suppression
        Enhancement
        View in Interactions Browser
        Please look at the allele data for full details of the genetic interactions
        Starting gene(s)
        Interaction type
        Interacting gene(s)
        Reference
        mir-306
        suppressible
        bam
        (Eun et al., 2013)
        Starting gene(s)
        Interaction type
        Interacting gene(s)
        Reference
        External Data
        Linkouts
        DroID - A comprehensive database of gene and protein interactions.
        Pathways
        Signaling Pathways (FlyBase)
        Metabolic Pathways
        External Data
        Linkouts
        Genomic Location and Detailed Mapping Data
        Chromosome (arm)
        2L
        Recombination map
        2-52
        Cytogenetic map
        36A10-36A10
        Sequence location
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        36A10-36A10
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        Experimentally Determined Recombination Data
        Location

        2-52

        (FlyBase, 2016)

        2-50.7

        (Comeron et al., 2012)
        Left of (cM)
        Right of (cM)
        Notes
        Stocks and Reagents
        Stocks (4)
        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 database merge of

                  Source for merge of: mir-306 mir-306S

                  (FlyBase Genome Annotators, 2010)
                  Additional comments

                  The annotation for mir-306 has been changed in release 5.31 of the genome annotation, so that instead of representing a mature miRNA it now represents the precursor stem loop pre-miRNA. Thus the separate annotations (CR33609 and CR33610) which previously each represented one of the two mature miRNAs made from the mir-306 stem loop precursor have been converted into a single annotation (CR42914).

                  (FlyBase Genome Annotators, 2010)
                  Other Comments

                  New annotation (CR33609) in release 4.1 of the genome annotation.

                  (FlyBase Genome Annotators, 2005)

                  New annotation (CR33610) in release 4.1 of the genome annotation.

                  (FlyBase Genome Annotators, 2005)
                  Origin and Etymology
                  Discoverer
                  Etymology
                  Identification
                  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.
                  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
                  GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
                  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.
                  modMine - A data warehouse for the modENCODE project
                  Linkouts
                  DroID - A comprehensive database of gene and protein interactions.
                  Synonyms and Secondary IDs (18)
                  Reported As
                  Symbol Synonym
                  306
                  (Han et al., 2011)
                  CR33609
                  (FlyBase Genome Annotators, 2005)
                  CR33610
                  (FlyBase Genome Annotators, 2005)
                  CR42914
                  (FlyBase Genome Annotators, 2010)
                  MIR-306
                  (Ylla et al., 2016)
                  MiR-306
                  (Yang et al., 2009)
                  dme-miR-306
                  (Volin et al., 2018, Towler et al., 2015, Esslinger et al., 2013)
                  dme-miR-306-5p
                  (Chandra et al., 2015)
                  dme-mir-306
                  (miRBase, 2013, Ryazansky et al., 2011, Huang and Gu, 2007, Krishnan et al., 2006)
                  miR-306
                  (Donelson et al., 2020, Kitatani et al., 2020, Reichholf et al., 2019, Simoes da Silva et al., 2019, Goodwin et al., 2018, Atilano et al., 2017, Picao-Osorio et al., 2017, Rainey et al., 2016, Fulga et al., 2015, Barrio et al., 2014, Eun et al., 2013, Mezan et al., 2013, Nesler et al., 2013, Liu et al., 2012, Behura et al., 2011, Liu et al., 2011, Tsurudome et al., 2010, Czech et al., 2009, Pek et al., 2009, Ibáñez-Ventoso et al., 2008, Leaman, 2005, Stark et al., 2005, Stark et al., 2003, Stark et al., 2003)
                  miR-306-5p
                  (Fast et al., 2017)
                  miR-306-star
                  (Mezan et al., 2013)
                  miR-306/79/9b
                  (Suh et al., 2015)
                  miR-306S
                  (Stark et al., 2003, Stark et al., 2003)
                  mir-306
                  (Hanyu-Nakamura et al., 2019, Cosacak et al., 2018, Mohammed and Lai, 2016.2.8, Chen et al., 2014, Mohammed et al., 2014, Wang et al., 2014, Yeh et al., 2014, Daneshvar et al., 2013, Smibert et al., 2013, Bejarano et al., 2012, Schertel et al., 2012, Szuplewski et al., 2012, FlyBase Genome Annotators, 2010, Herranz et al., 2010, Okamura et al., 2009, Neumuller et al., 2008, Okamura et al., 2008, Ravulapalli et al., 2008, Biryukova et al., 2007, Ruby et al., 2007, Burgler and Macdonald, 2005)
                  mir-306*
                  (Aravin et al., 2003)
                  mir-306S
                  Name Synonyms
                  mir-306
                  mir-306 stem loop
                  mir-306S
                  Secondary FlyBase IDs
                  • FBgn0067699
                  • FBgn0067698
                  • FBgn0262207
                  Datasets (0)
                  Study focus (0)
                  Experimental Role
                  Project
                  Project Type
                  Title
                  Study result (0)
                  Result
                  Result Type
                  Title
                  References (73)