FlyBase Gene Report: Dmel\mir-281-2

General Information

Symbol

Dmel\mir-281-2

Species

D. melanogaster

Name

mir-281-2 stem loop

Annotation Symbol

CR42975

Feature Type

miRNA_gene

FlyBase ID

FBgn0286007

Gene Model Status

Current

Stock Availability

5 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Interactive Fly

Also Known As

miR-281, dme-mir-281-2, dme-miR-281, mir-281bS, mir-P323-2

Key Links

Genomic Location

Cytogenetic map

48E4-48E4

Sequence location

2R:12,170,153..12,170,244 [-]

Recombination map

2-66

RefSeq locus

NT_033778 REGION:12170153..12170244

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 (2 terms)

Molecular Function (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (1 term)

Terms Based on Experimental Evidence (0 terms)

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:RF00249

(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:RF00249

(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-281-2 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

miRNA support: accession MI0000370 at http://www.sanger.ac.uk/Software/Rfam/mirna/ and FBrf0160711; FBrf0162058;

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

Conserved: found throughout the Drosophila genus (FBrf0230987).

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

FBtr0304376

FBtr0304377

FBtr0304375

Additional Transcript Data and Comments

Reported size (kB)

Comments

External Data

Crossreferences

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

MI0000370

Rfam - A collection of RNA sequence families of structural RNAs including non-coding RNA genes as well as cis-regulatory elements

RF00249

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\mir-281-2 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

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 4 -- 5

organism | restricted

Comment: along anterior-posterior axis

(Aboobaker et al., 2005)

RT-PCR

Stage

Tissue/Position (including subcellular localization)

Reference

third instar larval stage

organism

(Xiong et al., 2009)

pupal stage -- adult stage

organism

(Xiong et al., 2009)

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\mir-281-2 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-281-2

View exonic expression by tissue for Dmel\mir-281-2

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

Linkouts

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

12798417/tissue=All

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

FBgn0286007

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

FBgn0286007

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 ( 8 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of mir-281-2

Transgenic constructs containing regulatory region of mir-281-2

Aberrations (Deficiencies and Duplications) ( 2 )

Inferred from experimentation ( 2 )

Gene disrupted in

Df(2R)mir-281-1-281-2-KO

(Chen et al., 2014)

Df(2R)mir-281

(Yu et al., 2014)

Inferred from location ( 5 )

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-281-2^UAS.cSa

viable, with Scer\GAL4^Tub.PU

Other Phenotypes

Allele

visible, with Scer\GAL4^sd-SG29.1

mir-281-2^{UAS.DsRed(Unk)}

Phenotype manifest in

Allele

wing margin, with Scer\GAL4^sd-SG29.1

mir-281-2^{UAS.DsRed(Unk)}

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-281-2. 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 ( 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:

Off

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

Select Layout:

Force Directed

Circle

Concentric

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

mir-281-2 - AGO1

anti bait coimmunoprecipitation, northern blot

(Lim et al., 2020)

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

miRNA_gene

(FlyBase Genome Annotators, 2010, Rajewsky and Socci, 2004, Stark et al., 2003, Stark et al., 2003)

nuclear_gene

(FlyBase Genome Annotators, 2010, Rajewsky and Socci, 2004, Stark et al., 2003, Stark et al., 2003)

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-66

Cytogenetic map

48E4-48E4

Sequence location

2R:12,170,153..12,170,244 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

48E4-48E4

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

2-66

(FlyBase, 2016)

2-67.4

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (5)

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

Bloomington

59900

w^*; PBac{UASp-mir-281-1.mir-281-2.S}VK00037

41167

w¹¹¹⁸; P{UAS-LUC-mir-281-1.mir-281-2.T}attP2

59901

w^*; P{UASp-mir-281-1.mir-281-2.S}attP2/TM3, Sb¹

61411

w^*; P{UAS-mCherry.mir-281.sponge.V2}attP40; P{UAS-mCherry.mir-281.sponge.V2}attP2

61413

w^*; P{UAS-mCherry.mir-281-2.sponge.V2}attP40/CyO; P{UAS-mCherry.mir-281-2.sponge.V2}attP2

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 (CR33596) in release 4.1 of the genome annotation.

(FlyBase Genome Annotators, 2005)

New annotation (CR33593) in release 4.1 of the genome annotation.

(FlyBase Genome Annotators, 2005)

New annotation (CR33597) in release 4.1 of the genome annotation.

(FlyBase Genome Annotators, 2005)

Relationship to Other Genes

Source for database merge of

Source for merge of: mir-281b mir-281-2

(FlyBase Genome Annotators, 2007)

Source for merge of: mir-281b mir-281bS

(FlyBase Genome Annotators, 2010)

Source for merge of: mir-281-2 mir-P323-2

(Aravin et al., 2003)

Additional comments

The annotation for mir-281-2 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 (CR33596 and CR33597) which previously each represented one of the two mature miRNAs made from the mir-281-2 stem loop precursor have been converted into a single annotation (CR42975).

(FlyBase Genome Annotators, 2010)

Annotation CR33596 has been deleted and the two genes mir-281a and mir-281-1 merged under annotation CR33593 in release 5.2 of the genome annotation.

(FlyBase Genome Annotators, 2007)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (22)

Reported As

Symbol Synonym

281-2

(Chen et al., 2014)

CR33593

(FlyBase Genome Annotators, 2005)

CR33596

(FlyBase Genome Annotators, 2005)

CR33597

(FlyBase Genome Annotators, 2005)

CR42975

(FlyBase Genome Annotators, 2010)

MIR-281

(Ylla et al., 2016)

dme-miR-281

(Wang et al., 2019, Esslinger et al., 2013)

dme-miR-281-2

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

dme-miR-281-2-5p

(Chandra et al., 2015)

dme-mir-281-2

(He et al., 2022, miRBase, 2013, Gesellchen and Boutros, 2004)

miR-281

(Jin et al., 2020, Van Vactor, 2015.6.15, Yu et al., 2014, Xu et al., 2012, Leaman, 2005, Stark et al., 2003, Stark et al., 2003)

miR-281-2

(Bernard et al., 2024, Li et al., 2024, Kitatani et al., 2020, Lim et al., 2020, Goodwin et al., 2018, Picao-Osorio et al., 2017, Rainey et al., 2016, Wang et al., 2016, Fulga et al., 2015, Suh et al., 2015, Abe et al., 2014, Pancratov et al., 2013, Bejarano et al., 2012, Liu et al., 2011, Ghildiyal et al., 2010, Ibáñez-Ventoso et al., 2008, Behura, 2007)

miR-281-2-star

(Mezan et al., 2013)

miR-281b

(Lai et al., 2003)

miR-281bS

(Stark et al., 2003, Stark et al., 2003)

mir-281

(Yeh et al., 2014, Xiong et al., 2009)

mir-281-2

(Örkenby et al., 2023, Hanyu-Nakamura et al., 2019, Mohammed and Lai, 2016.2.8, Cook and Van Vactor, 2015.6.15, Wang et al., 2014, Bejarano et al., 2012, Schertel et al., 2012, Szuplewski et al., 2012, FlyBase Genome Annotators, 2010, Okamura et al., 2009, Neumuller et al., 2008, FlyBase Genome Annotators, 2007, Ruby et al., 2007)

mir-281-2*

(Xiong et al., 2009, Aravin et al., 2003)

mir-281b

mir-281bS

mir-P323-2

Name Synonyms

mir-281-2

mir-281-2 stem loop

mir-281b

mir-281bS

mir-P323-2

Secondary FlyBase IDs

FBgn0262423
FBgn0082175
FBgn0082176
FBgn0086607
FBgn0067712
FBgn0067710
FBgn0262268
FBgn0069124

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 15 )

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.

12798417

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

12798417/tissue=All

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

FBgn0286007

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

FBgn0286007

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

dme:Dmel_CR42975

MARRVEL_MODEL - MARRVEL (model organism gene)

12798417

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

MI0000370

Rfam - A collection of RNA sequence families of structural RNAs including non-coding RNA genes as well as cis-regulatory elements

RF00249

Linkouts

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0286007

References (65)

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

NA

Report Sections