Gene Dmel\mir-279

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General Information

Symbol

Dmel\mir-279

Species

D. melanogaster

Name

mir-279 stem loop

Annotation symbol

CR43015

Feature type

miRNA_gene

FlyBase ID

FBgn0262448

Gene Model Status

Current

Stock availability

1 publicly available

Also Known As

miR279

Genomic Location

Chromosome (arm)

Recombination map

Cytogenetic map

99A1-99A1

Sequence location

3R:25,041,307..25,041,406 [+]

Genomic Maps

Select View:

Summary Information

Automatically generated summary

See sections below for more information

The gene mir-279 stem loop is referred to in FlyBase by the symbol Dmel\mir-279 (CR43015, FBgn0262448). It is a miRNA_gene from Drosophila melanogaster. Its molecular function is unknown. There is experimental evidence that it is involved in the biological process: startle response; brain morphogenesis; wing disc dorsal/ventral pattern formation; locomotor rhythm; locomotion involved in locomotory behavior. 13 alleles are reported. The phenotypes of these alleles are annotated with: maxillary palpus; wing margin bristle; maxillary palp sensillum basiconicum; wing. It has one annotated transcript. Gene sequence location is 3R:25041307..25041406.

User Contributed Data

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Recent Updates

Description

What does this section display?

This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms).

What does this section not display?

This section does not currently display links that were removed or gene model changes.

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FB2013_03

FB2013_02

All updates

Click here to see a list of all updates to this record from FB2010_08 and on.

Detailed Mapping Data

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

99A1-99A1

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

98F-98F

(determined by in situ hybridisation)

(Szeged Stock Center, 1998-)

98F-98F

(determined by in situ hybridisation)

(Deak et al., 1997)

Experimentally Determined Recombination Data

Location

Left of (cM)

Right of (cM)

Notes

Gene Model & Products

Please see the GBrowse view of Dmel\mir-279 for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Comments on Gene Model

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

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

FBtr0304462

100

FBtr0304463

Additional Transcript Data & Comments

Reported size (kB)

Comments

External Data

Crossreferences

miRBase - the home of microRNA data

•

MI0000363

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Name

Mapped Features

Mapped Features have been reorganized, please see this article for details.

Additional mapped features and mutations can be found on GBrowse or related reports.

Type

Symbol & Location

Additional Notes

References

External Data

Linkouts

Crossreferences

Expression Data

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

Reference

See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.

FlyAtlas Anatomy Microarray

FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)

modENCODE Anatomy RNA-Seq

modENCODE Development RNA-Seq

modENCODE Temporal Expression Data (Graveley et al., 2011)

modENCODE Cell Lines RNA-Seq

modENCODE Treatments RNA-Seq

Expression Clusters

External Data & Images

Linkouts

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

lethal

mir-279^ex36-2

lethal, with Scer\GAL4^Act5C.PU

mir-279^Scer\UAS.cSa

lethal, with Scer\GAL4^Bx-MS1096

lethal | recessive

mir-279^S096207

Other Phenotypes

Allele

locomotor rhythm defective

mir-279^ex117-1

locomotor rhythm defective, with Scer\GAL4^mir-279.PC

locomotor rhythm defective, with Scer\GAL4^tim.PE

locomotor rhythm defective | RU486 conditional, with Scer\GAL4^{elav.Switch.PO}

neuroanatomy defective

mir-279^S096207

neuroanatomy defective | adult stage | somatic clone

mir-279^S096207

neurophysiology defective

mir-279^S096207

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

mir-279^{Scer\UAS.T:Disc\RFP}

Phenotype manifest in

Allele

carbon dioxide sensitive neuron | ectopic | somatic clone

mir-279^S096207

maxillary palp sensillum basiconicum

mir-279^S096207

maxillary palpus

mir-279^S096207

wing, with Scer\GAL4^Bx-MS1096

mir-279^{Scer\UAS.T:Disc\RFP}

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

mir-279^{Scer\UAS.T:Disc\RFP}

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

mir-279^{Scer\UAS.T:Disc\RFP}

Classical Alleles ( 5 )

For All Classical Alleles Show

Allele of mir-279	Class	Mutagen	Known lesion
mir-279^ex117-1	amorphic allele - molecular evidence	P-element activity	Yes
mir-279^EP3-364			--
mir-279^ex36-2		P-element activity	Yes
mir-279^NE95-11-24		P-element activity	Yes
mir-279^S096207		Delta2-3 P-element activity	Yes

Alleles Carried on Transgenic Constructs ( 8 )

For All Alleles Carried on Transgenic Constructs Show

Allele of mir-279	Mutagen	Stocks	Known lesion
mir-279^{Scer\UAS.T:Ppyr\LUC}	in vitro construct	1	Yes
mir-279^+t3	in vitro construct - genomic fragment	0	Yes
mir-279^Scer\UAS.cSa	in vitro construct - regulatory fusion	0	Yes
mir-279^Scer\UAS.L	in vitro construct - regulatory fusion	0	Yes
mir-279^Scer\UAS.S	in vitro construct - regulatory fusion	0	Yes
mir-279^{Scer\UAS.T:Disc\RFP}	in vitro construct - regulatory fusion in vitro construct - coding region fusion in vitro construct	0	Yes
mir-279^{T:Disc\RFP-DsRed2}	in vitro construct - regulatory fusion	0	Yes
mir-279^αTub84B.PS	in vitro construct - regulatory fusion	0	Yes

Aneuploid Aberrations

Disrupted in

Df(3R)3450

(Szeged Stock Center, 1998-)

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

UAS construct

M{UAS-mir-279.L}

M{UAS-mir-279.S}

M{UAS-mir-279.Sh}

P{UAS-DsRed-mir-279.L}

P{UAS-LUC-mir-279.T}

GAL4 construct

P{mir-279-GAL4.C}

characterization construct

P{mir-279^+t3}

Insertions

Type of insertions

Name

Expression data

insertion of enhancer trap

P{lacW}mir-279^S096207

insertion of mobile activating element

P{EP}mir-279^EP3-364

P{EP}mir-279^NE95-11-24

Gene Ontology: Function, Process & Cellular Component ( 5 unique terms )

Terms Based on Experimental Evidence ( 5 terms )

Molecular Function ( 0 terms)

Biological Process

CV term

Evidence

References

brain morphogenesis

inferred from mutant phenotype

(Yamamoto et al., 2008)

locomotion involved in locomotory behavior

inferred from mutant phenotype

(Yamamoto et al., 2008)

locomotor rhythm

inferred from mutant phenotype

(Luo and Sehgal, 2012)

startle response

inferred from mutant phenotype

(Yamamoto et al., 2008)

wing disc dorsal/ventral pattern formation

inferred from genetic interaction with Bx, ap

(Bejarano et al., 2008)

Cellular Component ( 0 terms)

Terms Based on Predictions or Assertions ( 0 terms )

Sequence Ontology: Class of Gene

gene

miRNA_gene

(Stark et al., 2003, Stark et al., 2003, FlyBase Genome Annotators, 2010)

nuclear_gene

(Stark et al., 2003, Stark et al., 2003, FlyBase Genome Annotators, 2010)

Interactions & Pathways

Summary of Physical Interactions

Summary of Genetic Interactions

Interacts with

Please look at the allele data for full details of the genetic interactions

mir-279 allele

Gene

References

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0262448

Orthologs

OrthoDB Orthologs (0) - based on analysis using Dmel annotation version 5.41

OrthoDB Ortholog Groups

OrthoDB orthology group searches

(Waterhouse et al., 2011, Nucleic Acids Res. 39(Database issue): D283--D288)

Drosophila inclusive ortholog search

No orthologs identified

Dipteran inclusive ortholog search

No orthologs identified

Insect inclusive ortholog search

No orthologs identified

Arthropod inclusive ortholog search

No orthologs identified

Metazoa inclusive ortholog search

No orthologs identified

Orthologs in Drosophila Species (None identified)

No orthologies identified

Orthologs in non-Drosophila Dipterans (None identified)

No non-Drosophilid orthologies identified

Orthologs in non-Dipteran Insects (None identified)

No non-Dipteran orthologies identified

Orthologs in non-Insect Arthropods (None identified)

No non-Insect Arthropod orthologies identified

Orthologs in non-Arthropod Metazoa (None identified)

No non-Arthropod Metazoa orthologies identified

Human Orthologs (0)

Gene

OMIM

HGNC

AAA Orthologs (0) based on analysis using Dmel annotation version 4.3

No orthologs identified

Stocks & Reagents

Stocks Listed in FlyBase ( 1 )

Bloomington

41147

w¹¹¹⁸; P{UAS-LUC-mir-279.T}attP2

Genomic Clones ( 1 )

BACR22E21

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

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi & Array Information

Linkouts

GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents

•

12798294

Other Information

Discoverer

Etymology

Identification

Relationship to Other Genes

Source for database identity of

Source for database merge of

Source for merge of: mir-279 l(3)S096207

(Cayirlioglu et al., 2008)

Additional comments

The annotation for mir-279 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 CR33590 to CR43015 to reflect this change.

(FlyBase Genome Annotators, 2010)

Other Comments

pros and mir-279 are required to prevent the formation of a CO[[2]] olfactory receptor neuron (ORN) within Or59c and Or42a ORN-containing maxillary palp sensilla.

(Hartl et al., 2011)

New annotation (CR33590) in release 4.1 of the genome annotation.

(FlyBase Genome Annotators, 2005)

External Crossreferences & Linkouts

Sequence Crossreferences

RefSeq (Transcripts)

•

Entrez Gene - A searchable database of RefSeq genes.

•

12798294

Other Crossreferences

miRBase - the home of microRNA data

•

MI0000363

Linkouts

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0262448

FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans

•

FBgn0262448

GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents

•

12798294

modMine - Data generated by the modENCODE project.

•

FBgn0262448

Synonyms & Secondary IDs ( 15 )

Reported As

Symbol Synonym

279

(Han et al., 2011)

0962/07

(Deak et al., 1997)

CR33590

(FlyBase Genome Annotators, 2005)

CR43015

(FlyBase Genome Annotators, 2010, )

dme-mir-279

(Gesellchen and Boutros, 2004)

l(3)S096207

miR

(Berdnik et al., 2008)

mir-279

(Daneshvar et al., 2013, Arancio et al., 2010, Enderle et al., 2011, Schertel et al., 2012, FlyBase Genome Annotators, 2010, Neumuller et al., 2008, Kuzin et al., 2007, Stark et al., 2007, Yamamoto et al., 2008, Liu et al., 2007, Martin et al., 2009, Okamura et al., 2009, Herranz et al., 2010, Stark et al., 2007, Smibert et al., 2011, Burgler and Macdonald, 2005, Bejarano et al., 2012, Yamamoto et al., 2009, Bejarano et al., 2012)

Mir-279

(Robins et al., 2005)

miR279

(Kadener et al., 2009, Zhang et al., 2010)

MiR-279

(Yang et al., 2009)

mir-279a

(Bejarano et al., 2008)

Name Synonym

lethal (3) S096207

mir-279

mir-279 stem loop

Secondary FlyBase IDs

FBgn0028049
FBgn0067714
FBgn0260633
FBgn0262308

References ( 62 )

Generate a list of

All references relating to this gene ( 62 )

List References by type

Recent research papers ( 13 )

Daneshvar et al., 2013, Biol. Open 2(1): 1--9: MicroRNA miR-308 regulates dMyc through a negative feedback loop in Drosophila. [FBrf0220584]
Bejarano et al., 2012, Development 139(15): 2821--2831: A genome-wide transgenic resource for conditional expression of Drosophila microRNAs. [FBrf0218840]
Djuranovic et al., 2012, Science 336(6078): 237--240: miRNA-mediated gene silencing by translational repression followed by mRNA deadenylation and decay. [FBrf0218066]
Liu et al., 2012, Nature 482(7386): 519--523: The microRNA miR-34 modulates ageing and neurodegeneration in Drosophila. [FBrf0217556]
Luo and Sehgal, 2012, Cell 148(4): 765--779: Regulation of Circadian Behavioral Output via a MicroRNA-JAK/STAT Circuit. [FBrf0217497]
Marrone et al., 2012, BMC Cell Biol. 13: 26: Dg-Dys-Syn1 signaling in Drosophila regulates the microRNA profile. [FBrf0220581]
Schertel et al., 2012, Genetics 192(4): 1543--1552: Functional Characterization of Drosophila microRNAs by a Novel in Vivo Library. [FBrf0220194]
Enderle et al., 2011, Genome Res. 21(2): 216--226: Polycomb preferentially targets stalled promoters of coding and noncoding transcripts. [FBrf0213048]
Han et al., 2011, Curr. Biol. 21(22): 1878--1887: The 3'-to-5' Exoribonuclease Nibbler Shapes the 3' Ends of MicroRNAs Bound to Drosophila Argonaute1. [FBrf0216729]
Hartl et al., 2011, J. Neurosci. 31(44): 15660--15673: A New Prospero and microRNA-279 Pathway Restricts CO2 Receptor Neuron Formation. [FBrf0216631]
Liu et al., 2011, Curr. Biol. 21(22): 1888--1893: The Exoribonuclease Nibbler Controls 3' End Processing of MicroRNAs in Drosophila. [FBrf0216782]
Smibert et al., 2011, RNA 17(11): 1997--2010: A Drosophila genetic screen yields allelic series of core microRNA biogenesis factors and reveals post-developmental roles for microRNAs. [FBrf0216392]
Yoon et al., 2011, Nat. Cell Biol. 13(9): 1062--1069: miRNA-mediated feedback inhibition of JAK/STAT morphogen signalling establishes a cell fate threshold. [FBrf0215016]

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Recent reviews (0)

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