FlyBase Gene Report: Dmel\mir-100

General Information

Symbol

Dmel\mir-100

Species

D. melanogaster

Name

mir-100 stem loop

Annotation Symbol

CR43044

Feature Type

miRNA_gene

FlyBase ID

FBgn0262463

Gene Model Status

Current

Stock Availability

4 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Interactive Fly

Also Known As

dme-mir-100

Key Links

Genomic Location

Cytogenetic map

36F5-36F5

Sequence location

2L:18,471,434..18,471,533 [+]

Recombination map

2-53

RefSeq locus

NT_033779 REGION:18471434..18471533

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

Gene Ontology (GO) Annotations (3 terms)

Molecular Function (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

involved_in cellular response to ecdysone

inferred from mutant phenotype

(Chawla and Sokol, 2012)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in miRNA-mediated post-transcriptional gene silencing

inferred from electronic annotation with Rfam:RF00104

(RNAcentral, 2018-)

Cellular Component (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

part_of RISC complex

inferred from electronic annotation with Rfam:RF00104

(RNAcentral, 2018-)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\mir-100 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

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, Sokol and Ambros, 2003)

nuclear_gene

(FlyBase Genome Annotators, 2010, Sokol and Ambros, 2003)

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

FBtr0304524

FBtr0472734

FBtr0304523

100

Additional Transcript Data and Comments

Reported size (kB)

Comments

External Data

Crossreferences

miRBase - A searchable database of published miRNA sequences and annotation.

MI0000378

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-100 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

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)

prepupal stage -- adult stage

(Sempere et al., 2003)

pupal stage -- adult stage

organism

(Aravin et al., 2003)

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

mir-100-miRNA is detected in increasing quantities during larval to pupal transition.

(Wu et al., 2012)

Expression is stronger in adults than in pupae.

(Aravin et al., 2003)

Northern analysis of 24 microRNAs showed that mir-100, mir-125 and let-7 transcripts display the same pattern of expression and can be detected from pre-pupariation through adulthood. No transcript is detected in earlier stage.

(Sempere et al., 2003)

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\mir-100 in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\mir-100

View exonic expression by tissue for Dmel\mir-100

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

12798011/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0262463

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0262463

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 ( 16 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of mir-100

Transgenic constructs containing regulatory region of mir-100

Aberrations (Deficiencies and Duplications) ( 2 )

Inferred from experimentation ( 2 )

Gene disrupted in

Df(2L)let-7-C^KO1

(Sokol et al., 2008)

Df(2L)let-7-C^KO2

(Wu et al., 2012)

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.

Lethality

Allele

viable, with Scer\GAL4^Act5C.PU

mir-100^UAS.cSa

viable, with Scer\GAL4^Tub.PU

mir-100^{sponge.V2.UAS.mCherry}

Other Phenotypes

Allele

abnormal memory, with Df(2L)let-7-C^GKI/Df(2L)let-7-C^KO1, mir-125^+tSa, mir-let7^Δ.cSa

mir-100^+tSa

abnormal neuroanatomy, with Df(2L)let-7-C^GKI/Df(2L)let-7-C^KO1, mir-125^+tSa, mir-let7^Δ.cSa

mir-100^+tSa

Phenotype manifest in

Allele

adult mushroom body beta-lobe, with Df(2L)let-7-C^GKI/Df(2L)let-7-C^KO1, mir-125^+tSa, mir-let7^Δ.cSa

mir-100^+tSa

lobe system of adult mushroom body, with Df(2L)let-7-C^GKI/Df(2L)let-7-C^KO1, mir-125^+tSa, mir-let7^Δ.cSa

mir-100^+tSa

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (0)

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

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:mir-100. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (0)

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 ( 1 )

Allele

Disease

Interaction

References

mir-100^{sponge.V2.UAS.mCherry}

ameliorates cancer

modeled by ph-d⁵⁰⁵, ph-p⁵⁰⁵

(Jiang et al., 2018)

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:

Off

Show/hide secondary interactors
(data from AllianceMine provided by esyN)

Select Layout:

Force Directed

Circle

Concentric

Legend:

Protein

RNA

Selected Interactor(s)

Interactions Browser

View in Interactions Browser

Please see the Physical Interaction reports below for full details

MIST Molecular Interaction Search Tool

View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

RNA-protein

Physical Interaction

Assay

References

mir-100 - AGO2

anti tag coimmunoprecipitation, northern blot

(Abe et al., 2014)

mir-100 - Dcr-1

enzymatic study, autoradiography

(Pandey et al., 2022)

mir-100 - drosha

enzymatic study, autoradiography

(Pandey et al., 2022)

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

DroID - A comprehensive database of gene and protein interactions.

FBgn0262463

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-53

Cytogenetic map

36F5-36F5

Sequence location

2L:18,471,434..18,471,533 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

36F5-36F5

Limits computationally determined from genome sequence between P{lacW}Aac11^k06710 and P{EP}CG10413^EP2164 36E3

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

36E5-36F2

(Sempere et al., 2003)

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 (4)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

41166

w¹¹¹⁸; P{UAS-LUC-mir-100.T}attP2

92825

w^*; sna^Sco/CyO; P{UAS-let7C}3

61391

w^*; P{UAS-mCherry.mir-100.sponge.V2}attP40/CyO; P{UAS-mCherry.mir-100.sponge.V2}attP2

FlyORF

F001978

M{UAS-mir-100.S}ZH-86Fb

Genomic Clones (21)

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 (CR33313) in release 3.2 of the genome annotation.

(FlyBase Genome Annotators, 2004)

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)

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

(Sempere et al., 2003)

Relationship to Other Genes

Source for database merge of

Additional comments

The annotation for mir-100 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 CR33313 to CR43044 to reflect this change.

(FlyBase Genome Annotators, 2010)

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)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (8)

Reported As

Symbol Synonym

CR33313

CR43044

(FlyBase Genome Annotators, 2010)

Dme-miR-100

(Zhou et al., 2009)

dme-miR-100

(Volin et al., 2018, Dhahbi et al., 2016, Towler et al., 2015)

dme-mir-100

(He et al., 2022, Pegoraro et al., 2022, Mohammed et al., 2014, miRBase, 2013, Reinhardt et al., 2012, Ryazansky et al., 2011, Huang and Gu, 2007)

mir-100

(Pandey et al., 2022, Ueda et al., 2018, Chawla et al., 2016, Mohammed and Lai, 2016.2.8, Van Bortle et al., 2015, Chen et al., 2014, Fagegaltier et al., 2014, Mohammed et al., 2014, Shlyueva et al., 2014, Wang et al., 2014, Yeh et al., 2014, Bejarano et al., 2012, Schertel et al., 2012, FlyBase Genome Annotators, 2010, Neumuller et al., 2008, Sokol et al., 2008, Sokol et al., 2008, Ruby et al., 2007, Stark et al., 2007)

Name Synonyms

mir-100

mir-100 stem loop

Secondary FlyBase IDs

FBgn0064160
FBgn0053313
FBgn0262337

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 14 )

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.

12798011

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

12798011/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0262463

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0262463

KEGG Genes - Molecular building blocks of life in the genomic space.

dme:Dmel_CR43044

MARRVEL_MODEL - MARRVEL (model organism gene)

12798011

miRBase - A searchable database of published miRNA sequences and annotation.

MI0000378

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0262463

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0262463

References (84)

The following external sites may use different assemblies or annotations than FlyBase.

NA

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