FB2021_02, released April 13, 2021

Gene: Dmel\mir-let7

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General Information
Symbol
Dmel\mir-let7
Species
D. melanogaster
Name
let-7
Annotation Symbol
CR42949
Feature Type
miRNA_gene
FlyBase ID
FBgn0262406
Gene Model Status
Current
Stock Availability
3 publicly available
Gene Summary
encodes an RNA species involved in translational silencing of target mRNAs - -to- miRNA switch regulates neuronal integrity and lifespan in Drosophila (Interactive Fly, mir-let7 )
Contribute a Gene Snapshot for this gene.
All Summaries
Also Known As

dme-let-7

Key Links
Genomic Location
Cytogenetic map
36F5-36F5
Sequence location
2L:18,472,034..18,472,111 [+]
Recombination map
2-53
RefSeq locus
NT_033779 REGION:18472034..18472111
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 (0 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Biological Process (5 terms)
Terms Based on Experimental Evidence (5 terms)
CV Term
Evidence
References
involved_in cellular response to ecdysone
inferred from mutant phenotype
(Chawla and Sokol, 2012)
involved_in metamorphosis
inferred from expression pattern
(Sempere et al., 2002)
involved_in mushroom body development
inferred from mutant phenotype
(Kucherenko et al., 2012)
involved_in negative regulation of gene expression
inferred from mutant phenotype
(Wu et al., 2012)
involved_in regulation of development, heterochronic
inferred from mutant phenotype
(Caygill and Johnston, 2008, Sokol et al., 2008)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
involved_in regulation of development, heterochronic
traceable author statement
(Banerjee and Slack, 2002)
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
    Summary (Interactive Fly)

    encodes an RNA species involved in translational silencing of target mRNAs - -to- miRNA switch regulates neuronal integrity and lifespan in Drosophila

    Gene Model and Products
    Number of Transcripts
    3
    Number of Unique Polypeptides
    0

    Please see the JBrowse view of Dmel\mir-let7 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

    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, Lagos-Quintana et al., 2001)
    nuclear_gene
    (FlyBase Genome Annotators, 2010, Lagos-Quintana et al., 2001)
    Transcript Data
    Annotated Transcripts
    Name
    FlyBase ID
    RefSeq ID
    Length (nt)
    mir-let7-RA
    FBtr0304324
    NR_047999
    21
    mir-let7-RB
    FBtr0472746
    22
    mir-let7-RM
    FBtr0304323
    NR_047998
    78
    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-let7 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
      northern blot
      Stage
      Tissue/Position (including subcellular localization)
      Reference
      late third instar larval stage -- pupal stage P7
      central nervous system

      Comment: 102h AEL - 36h APF

      (Wu et al., 2012)
      adult stage | male
      organism

      Comment: levels increase with age

      (Chawla et al., 2016)
      adult stage | female
      organism

      Comment: levels increase with age

      (Chawla et al., 2016)
      RT-PCR
      Stage
      Tissue/Position (including subcellular localization)
      Reference
      adult stage | male
      organism

      Comment: levels increase with age

      (Chawla et al., 2016)
      adult stage | female
      organism

      Comment: levels increase with age

      (Chawla et al., 2016)
      Additional Descriptive Data

      let-7-miRNA is detected in increasing quantities during larval to pupal transition.

      (Wu et al., 2012)
      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-let7 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
      Alleles, Insertions, Transgenic Constructs, and Aberrations
      Classical and Insertion Alleles ( 1 )
      For All Classical and Insertion Alleles Show
       
      Other relevant insertions
      Transgenic Constructs ( 19 )
      For All Alleles Carried on Transgenic Constructs Show
      Transgenic constructs containing/affecting coding region of mir-let7
      Transgenic constructs containing regulatory region of mir-let7
      Aberrations (Deficiencies and Duplications) ( 2 )
      Inferred from experimentation ( 2 )
      Gene disrupted in
      Df(2L)let-7-CKO1
      (Sokol et al., 2008)
      Df(2L)let-7-CKO2
      (Wu et al., 2012)
      Inferred from location ( 0 )
      Phenotypes
      For more details about a specific phenotype click on the relevant allele symbol.
      Lethality
      Allele
      lethal, with Scer\GAL4Act5C.PU
      lethal, with Scer\GAL4Bx-MS1096
      lethal, with Scer\GAL4ey.PU
      lethal - all die before end of larval stage, with Scer\GAL4ptc-559.1
      lethal - all die before end of pupal stage, with Scer\GAL4sd-SG29.1
      viable, with Scer\GAL4Tub.PU
      Other Phenotypes
      Allele
      abnormal locomotor behavior | recessive
      abnormal memory, with Df(2L)let-7-CGKI/Df(2L)let-7-CKO1, mir-100+tSa, mir-125+tSa
      abnormal neuroanatomy, with Df(2L)let-7-CGKI/Df(2L)let-7-CKO1, mir-100+tSa, mir-125+tSa
      abnormal neuroanatomy | recessive
      long lived | female | RU486 conditional, with Scer\GAL4elav.Switch.PO
      short lived | female | RU486 conditional, with Scer\GAL4Tub.Switch.PU
      short lived | male | RU486 conditional, with Scer\GAL4elav.Switch.PO
      some die during larval stage, with Scer\GAL4ptc-559.1
      some die during pupal stage, with Scer\GAL4sd-SG29.1
      visible, with Scer\GAL4Bx-MS1096
      visible, with Scer\GAL4vg.PM
      Phenotype manifest in
      Allele
      adult mushroom body beta-lobe, with Df(2L)let-7-CGKI/Df(2L)let-7-CKO1, mir-100+tSa, mir-125+tSa
      dopaminergic neuron
      egg chamber, with Scer\GAL4da.G32
      lobe system of adult mushroom body, with Df(2L)let-7-CGKI/Df(2L)let-7-CKO1, mir-100+tSa, mir-125+tSa
      wing, with Scer\GAL4vg.PM
      wing disc, with Scer\GAL4vg.PM
      wing disc | somatic clone, with Scer\GAL4Act.PU
      wing vein L5, with Scer\GAL4Bx-MS1096
      Orthologs
      Downloads
      Download All DIOPT Orthologs
      Download All OrthoDB Orthologs
      Human Orthologs (via DIOPT v8.0)
      Homo sapiens (Human) (4)
      Species\Gene Symbol
      Score
      Best Score
      Best Reverse Score
      Source
      Compara
      eggNOG
      Hieranoid
      Homologene
      Inparanoid
      Isobase
      OMA
      OrthoDB
      OrthoFinder
      OrthoInspector
      orthoMCL
      Panther
      Phylome
      RoundUp
      TreeFam
      ZFIN
      Alignment
      Complementation?
      Transgene?
      Hsap\MIRLET7A2
      1 of 15
      Yes
      Yes
      Hsap\MIRLET7C
      1 of 15
      Yes
      Yes
      Hsap\MIRLET7D
      1 of 15
      Yes
      Yes
      Hsap\MIRLET7E
      1 of 15
      Yes
      Yes
      Model Organism Orthologs (via DIOPT v8.0)
      Mus musculus (laboratory mouse) (3)
      Species\Gene Symbol
      Score
      Best Score
      Best Reverse Score
      Source
      Compara
      eggNOG
      Hieranoid
      Homologene
      Inparanoid
      Isobase
      OMA
      OrthoDB
      OrthoFinder
      OrthoInspector
      orthoMCL
      Panther
      Phylome
      RoundUp
      TreeFam
      ZFIN
      Alignment
      Complementation?
      Transgene?
      Mmus\Mirlet7c-1
      1 of 15
      Yes
      Yes
      Mmus\Mirlet7d
      1 of 15
      Yes
      Yes
      Mmus\Mirlet7e
      1 of 15
      Yes
      Yes
      Rattus norvegicus (Norway rat) (2)
      Rnor\Mirlet7c1
      1 of 13
      Yes
      Yes
      Rnor\Mirlet7d
      1 of 13
      Yes
      Yes
      Xenopus tropicalis (Western clawed frog) (0)
      No records found.
      Danio rerio (Zebrafish) (8)
      Drer\mirlet7a-2
      1 of 15
      Yes
      Yes
      Drer\mirlet7a-4
      1 of 15
      Yes
      Yes
      Drer\mirlet7a-5
      1 of 15
      Yes
      Yes
      Drer\mirlet7a-6
      1 of 15
      Yes
      Yes
      Drer\mirlet7c-1
      1 of 15
      Yes
      Yes
      Drer\mirlet7c-2
      1 of 15
      Yes
      Yes
      Drer\mirlet7d-1
      1 of 15
      Yes
      Yes
      Drer\mirlet7d-2
      1 of 15
      Yes
      Yes
      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 ( 1 )
      Allele
      Disease
      Interaction
      References
      mir-let7UAS.cGa
      ameliorates  Parkinson's disease
      modeled by LrrkI1915T.UAS
      (Gehrke et al., 2010)
      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
      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-let7|mir-125
      suppressible
      ab
      (Caygill and Johnston, 2008)
      mir-let7
      suppressible
      Dp
      (Gehrke et al., 2010)
      mir-let7
      suppressible
      E2f1
      (Gehrke et al., 2010)
      Starting gene(s)
      Interaction type
      Interacting gene(s)
      Reference
      EcR
      suppressible
      mir-let7
      (Kucherenko et al., 2012)
      Lrrk
      suppressible
      mir-let7
      (Gehrke et al., 2010)
      usp
      suppressible
      mir-let7
      (Kucherenko et al., 2012)
      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
      2-53
      Cytogenetic map
      36F5-36F5
      Sequence location
      2L:18,472,034..18,472,111 [+]
      FlyBase Computed Cytological Location
      Cytogenetic map
      Evidence for location
      36F5-36F5
      Limits computationally determined from genome sequence between P{lacW}Aac11k06710 and P{EP}CG10413EP2164
      Experimentally Determined Cytological Location
      Cytogenetic map
      Notes
      References
      Experimentally Determined Recombination Data
      Location

      2-53

      (FlyBase, 2016)

      2-53.3

      (Comeron et al., 2012)
      Left of (cM)
      Right of (cM)
      Notes
      Stocks and Reagents
      Stocks (3)
      Genomic Clones (21)
      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: mir-let7 let-7

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

                The annotation for let-7 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. The symbol of the annotation has been changed from CR32968 to CR42949 to reflect this change.

                (FlyBase Genome Annotators, 2010)

                Added 'mir-' prefix to be consistent with miRNA naming conventions in FlyBase, and thereby indicate the gene encodes a miRNA in its symbol.

                (FlyBase, 2009-)

                The three microRNAs let-7, mir-125 and mir-100 are co-transcribed as a single polycistronic transcription unit (the "let-7-Complex, let-7-C").

                (Sokol et al., 2008)
                Other Comments

                let-7 is required to regulate the timing of the α'/β' to α/β neuronal identity transition in the developing mushroom body, by targeting the ab transcription factor.

                (Kucherenko et al., 2012)

                let-7 is required to ensure the appropriate remodeling of the abdominal neuromusculature during the larval-to-adult transition.

                (Sokol et al., 2008)

                A long primary transcript comprising all the hairpin precursor sequences for mir-100, let-7 and mir-125 has been detected by RT-PCR. Overall orientation not stated: mir-100+ let-7+ mir-125+

                (Aravin et al., 2003)

                let-7 and mir-125 appear to be expressed from a common precursor RNA.

                (Bashirullah et al., 2003)

                mir-100, mir-125 and let-7 sequences are clustered within 800bp in 36E5--36F2.

                (Sempere et al., 2003)

                New annotation (CR32968) in release 3 of the genome annotation.

                (FlyBase Genome Annotators, 2002-2003)

                Hormone induced expression of let-7 may control developmental stage transitions.

                (Sempere et al., 2002)

                A developmentally regulated precursor RNA is cleaved by an RNA interference-like mechanism to produce mature let-7 small temporal RNA (stRNA).

                (Hutvagner et al., 2001)
                Origin and Etymology
                Discoverer
                Etymology
                Identification
                External Crossreferences and Linkouts ( 13 )
                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
                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.
                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.
                Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
                Synonyms and Secondary IDs (11)
                Reported As
                Symbol Synonym
                CR32968
                CR42949
                (FlyBase Genome Annotators, 2010)
                Let-7
                (Chandra et al., 2017, Ylla et al., 2016, Tan et al., 2012, Yang et al., 2009, Jing et al., 2005)
                dme-let-7
                (Alberti et al., 2018, Volin et al., 2018, Dhahbi et al., 2016, Lucas et al., 2015, Towler et al., 2015, Mohammed et al., 2014, Esslinger et al., 2013, miRBase, 2013, Reinhardt et al., 2012, Berezikov et al., 2011, Ryazansky et al., 2011, O'Farrell et al., 2008, Huang and Gu, 2007)
                let-7
                (Jin et al., 2020, Kinser and Pincus, 2020, Lim et al., 2020, Herrera and Bach, 2019, Lee et al., 2019, Liu et al., 2019, Liu et al., 2019, Sreejith et al., 2019, Daniel et al., 2018, Goodwin et al., 2018, Mickute et al., 2018, Tsuboyama et al., 2018, Ueda et al., 2018, Xue and Zhang, 2018, Busto et al., 2017, Doe, 2017, Gendron and Pletcher, 2017, He et al., 2017, Kreher et al., 2017, Mendoza-Viveros et al., 2017, Niinuma and Tomari, 2017, Picao-Osorio et al., 2017, Shu et al., 2017, Faunes and Larraín, 2016, Ma et al., 2016, Mohammed and Lai, 2016.2.8, Xiong et al., 2016, Yasugi and Nishimura, 2016, Chen et al., 2015, Dorn and Dorn, 2015, Fulga et al., 2015, Iwasaki et al., 2015, Liang et al., 2015, Suh et al., 2015, Van Bortle et al., 2015, Abe et al., 2014, Chawla and Sokol, 2014, Chen et al., 2014, Chen et al., 2014, Fagegaltier et al., 2014, Kong et al., 2014, Kozomara et al., 2014, Mohammed et al., 2014, Shlyueva et al., 2014, Sorourian et al., 2014, Stratoulias et al., 2014, Wang et al., 2014, Xia and Zhang, 2014, Yeh et al., 2014, Gomes et al., 2013, Lucas and Raikhel, 2013, Mezan et al., 2013, Nesler et al., 2013, Pancratov et al., 2013, Bejarano et al., 2012, Bejarano et al., 2012, Chawla and Sokol, 2012, Fukunaga et al., 2012, Kucherenko et al., 2012, Matunis et al., 2012, Schertel et al., 2012, Tan et al., 2012, Toledano et al., 2012, Toledano et al., 2012, Westholm et al., 2012, Wu et al., 2012, Ameres et al., 2011, Behura et al., 2011, Cenik et al., 2011, Gerbasi et al., 2011, Han et al., 2011, Liu et al., 2011, Patraquim et al., 2011, Tsutsumi et al., 2011, Ameres et al., 2010, Fernandez-Valverde et al., 2010, FlyBase Genome Annotators, 2010, Garbuzov and Tatar, 2010, Gehrke et al., 2010, Gerbasi et al., 2010, Iwasaki et al., 2010, Miyoshi et al., 2010, Moretti et al., 2010, Czech et al., 2009, Iwasaki et al., 2009, Kawamata et al., 2009, Miyoshi et al., 2009, Yu et al., 2009, Caygill and Johnston, 2008, Caygill and Johnston, 2008, Ibáñez-Ventoso et al., 2008, O'Farrell et al., 2008, Sokol et al., 2008, Sokol et al., 2008, Stark et al., 2008, Behura, 2007, Caygill and Johnston, 2007, Förstemann et al., 2007, Liu et al., 2007, Ruby et al., 2007, Ruby et al., 2007, Ruby et al., 2007, Tomari et al., 2007, Wakiyama et al., 2007, Ye et al., 2007, Plasterk, 2006, Burgler and Macdonald, 2005, Stark et al., 2005, Haley and Zamore, 2004, Lau et al., 2001)
                let-7-5p
                (Lim et al., 2018)
                let-7-C
                (Luhur et al., 2014)
                let7
                (Shafer and Keene, 2021, Sinigaglia et al., 2019, Jiang et al., 2018, Tataroglu and Emery, 2015, Bejarano et al., 2012, Neumuller et al., 2008)
                let7-5p
                (Fast et al., 2017)
                miR-let-7
                (Atilano et al., 2017)
                mir-let7
                (Sapar and Han, 2019, Shcherbata, 2019, Swevers, 2019, Yoshinari et al., 2019)
                Name Synonyms
                let-7
                Secondary FlyBase IDs
                • FBgn0260473
                • FBgn0043885
                • FBgn0262242
                Datasets (0)
                Study focus (0)
                Experimental Role
                Project
                Project Type
                Title
                References (199)