Gene Dmel\mir-2a-2

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General Information

Symbol

Dmel\mir-2a-2

Species

D. melanogaster

Name

mir-2a-2 stem loop

Annotation symbol

CR43035

Feature type

miRNA_gene

FlyBase ID

FBgn0262460

Gene Model Status

Current

Stock availability

None publicly available

Also Known As

mir-2a, miR-2, dme-mir-2a-2, miR2a, miR2

Genomic Location

Chromosome (arm)

Recombination map

Cytogenetic map

37F2-37F2

Sequence location

2L:19,569,490..19,569,561 [-]

Genomic Maps

Select View:

Summary Information

Automatically generated summary

See sections below for more information

The gene mir-2a-2 stem loop is referred to in FlyBase by the symbol Dmel\mir-2a-2 (CR43035, FBgn0262460). 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: negative regulation of cell death; negative regulation of translational initiation. 3 alleles are reported. No phenotypic data is available. It has one annotated transcript. Gene sequence location is 2L:19569490..19569561.

User Contributed Data

Beta version, feedback welcome

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

37F2-37F2

Limits computationally determined from genome sequence between P{EP}EP623&P{PZ}spi⁰¹⁰⁶⁸ and P{lacW}l(2)k10239^k10239

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

Left of (cM)

Right of (cM)

Notes

Gene Model & Products

Please see the GBrowse view of Dmel\mir-2a-2 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)

FBtr0304504

FBtr0304505

FBtr0309747

Additional Transcript Data & Comments

Reported size (kB)

Comments

This miRNA exists in multiple copies in the genome.

(Aravin et al., 2003)

External Data

Crossreferences

miRBase - the home of microRNA data

•

MI0000118

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Name

AJ421758

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

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage -- adult stage

(Sempere et al., 2003, Aravin et al., 2003)

Additional Descriptive Data

Expression has a broad peak from the fourth hour of embryonic development through the first larval instar.

(Aravin et al., 2003)

Northern analysis of 24 microRNAs showed that a number of them were expressed constituitively throughout development.

(Sempere et al., 2003)

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

viable, with Scer\GAL4^Act5C.PU

mir-2a-2^Scer\UAS.cSa

Phenotype manifest in

Allele

Classical Alleles ( 0 )

For All Classical Alleles Show

Allele of mir-2a-2	Class	Mutagen	Stocks	Known lesion

Alleles Carried on Transgenic Constructs ( 3 )

For All Alleles Carried on Transgenic Constructs Show

Allele of mir-2a-2	Mutagen	Known lesion
mir-2a-2^{Scer\UAS.cluster.cLa}	in vitro construct - regulatory fusion	Yes
mir-2a-2^{Scer\UAS.cluster.T:Disc\RFP-DsRed2}	in vitro construct - regulatory fusion in vitro construct - coding region fusion	Yes
mir-2a-2^Scer\UAS.cSa	in vitro construct - regulatory fusion	Yes

Aneuploid Aberrations

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

UAS construct

M{UAS-mir-2a-2.S}

P{UAS-DsRed2-mir-2a-1.mir-2a-2.mir-2b-2.L}

P{UAS-mir-2a-1.mir-2a-2.mir-2b-2.L}

Insertions

Type of insertions

Name

Expression data

Gene Ontology: Function, Process & Cellular Component ( 2 unique terms )

Terms Based on Experimental Evidence ( 2 terms )

Molecular Function ( 0 terms)

Biological Process

CV term

Evidence

References

negative regulation of cell death

inferred from mutant phenotype

(Leaman et al., 2005)

negative regulation of translational initiation

inferred from direct assay

(Thermann and Hentze, 2007)

Cellular Component ( 0 terms)

Terms Based on Predictions or Assertions ( 0 terms )

Sequence Ontology: Class of Gene

miRNA_gene

(Lagos-Quintana et al., 2001, FlyBase Genome Annotators, 2010)

nuclear_gene

(Lagos-Quintana et al., 2001, 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-2a-2 allele

Gene

References

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0262460

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 ( 0 )

Genomic Clones ( 2 )

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

•

12798016

Other Information

Discoverer

Etymology

Identification

Relationship to Other Genes

Source for database identity of

Source for database merge of

Additional comments

The annotation for mir-2a-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. The symbol of the annotation has been changed from CR32966 to CR43035 to reflect this change.

(FlyBase Genome Annotators, 2010)

Other Comments

"mir-2" inhibits translation initiation without affecting mRNA stability.

(Thermann and Hentze, 2007)

mir-2a-1, mir-2a-2 and mir-2b-2 sequences are clustered within 400bp in 37E3-38A2.

(Sempere et al., 2003)

New annotation (CR32966) in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

External Crossreferences & Linkouts

Sequence Crossreferences

RefSeq (Transcripts)

•

DDBJ / EMBL / GenBank

•

AJ421758

Entrez Gene - A searchable database of RefSeq genes.

•

12798016

Other Crossreferences

miRBase - the home of microRNA data

•

MI0000118

Linkouts

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0262460

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

•

FBgn0262460

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

•

12798016

modMine - Data generated by the modENCODE project.

•

FBgn0262460

Synonyms & Secondary IDs ( 14 )

Reported As

Symbol Synonym

2a-2

(Han et al., 2011)

CR32966

CR43035

(FlyBase Genome Annotators, 2010, )

dme-mir-2a-2

(Berezikov et al., 2011, Wang and Liu, 2011)

miR-2

(Bejarano et al., 2012, Carthew, 2006, Landthaler et al., 2004, He and Hannon, 2004, Bartel, 2004, Grosshans and Slack, 2002, Sempere et al., 2003, Leaman et al., 2005, Moretti et al., 2010, Lau et al., 2001)

mir-2

(Sokol and Ambros, 2003, Lee and Ambros, 2001)

miR2

(Zdanowicz et al., 2009, Thermann and Hentze, 2007)

mir-2a

(Daneshvar et al., 2013, Sempere et al., 2003, Neumuller et al., 2008, Martin et al., 2009, Herranz et al., 2010, Cao and Chen, 2012)

miR-2a

(Smibert et al., 2011, Rehwinkel et al., 2006, Leaman, 2005, Alvarez-Garcia and Miska, 2005, Nakahara and Carthew, 2004, Boutla et al., 2003, Lai, 2003, Stark et al., 2003, Lee et al., 2001, Lagos-Quintana et al., 2001, Stark et al., 2005, Behura, 2007, Rehmsmeier et al., 2004, Liu et al., 2012)

miR2a

(Denli et al., 2004, Thermann and Hentze, 2007)

miR2-a

(Gesellchen and Boutros, 2004)

mir-2a-2

(Okamura et al., 2008, Schertel et al., 2012, FlyBase Genome Annotators, 2010, Lau et al., 2009, Okamura et al., 2009, Ruby et al., 2007)

miR-2a-2

(Lai et al., 2003, Schwarz et al., 2003, Lai, 2002, Czech et al., 2009, Ghildiyal et al., 2010)

Name Synonym

miR-2a

(Rehmsmeier et al., 2004)

mir-2a-2

mir-2a-2 stem loop

Secondary FlyBase IDs

FBgn0046825
FBgn0262328

References ( 59 )

Generate a list of

All references relating to this gene ( 59 )

List References by type

Recent research papers ( 10 )

Daneshvar et al., 2013, Biol. Open 2(1): 1--9: MicroRNA miR-308 regulates dMyc through a negative feedback loop in Drosophila. [FBrf0220584]
Cao and Chen, 2012, Nucleic Acids Res. 40(10): 4681--4690: Predicting kissing interactions in microRNA-target complex and assessment of microRNA activity. [FBrf0219036]
Liu et al., 2012, Nature 482(7386): 519--523: The microRNA miR-34 modulates ageing and neurodegeneration in Drosophila. [FBrf0217556]
Marco et al., 2012, RNA Biol. 9(3): 242--248: Evolution and function of the extended miR-2 microRNA family. [FBrf0218970]
Schertel et al., 2012, Genetics 192(4): 1543--1552: Functional Characterization of Drosophila microRNAs by a Novel in Vivo Library. [FBrf0220194]
Szuplewski et al., 2012, Genetics 190(2): 617--626: MicroRNA Transgene Overexpression Complements Deficiency-Based Modifier Screens in Drosophila. [FBrf0217517]
Berezikov et al., 2011, Genome Res. 21(2): 203--215: Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence. [FBrf0213080]
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]
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]
Wang and Liu, 2011, Front. Genet. 2: 25: Systematic Curation of miRBase Annotation Using Integrated Small RNA High-Throughput Sequencing Data for C. elegans and Drosophila. [FBrf0217393]

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Recent reviews (0)

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