Gene Dmel\mir-1

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General Information

Symbol

Dmel\mir-1

Species

D. melanogaster

Name

mir-1 stem loop

Annotation symbol

CR43027

Feature type

miRNA_gene

FlyBase ID

FBgn0262455

Gene Model Status

Current

Stock availability

None publicly available

Also Known As

DmiR-1, Mir1

Genomic Location

Chromosome (arm)

Recombination map

Cytogenetic map

38C8-38C8

Sequence location

2L:20,487,441..20,487,531 [+]

Genomic Maps

Select View:

modENCODE GBrowse

Summary Information

Automatically generated summary

See sections below for more information

The gene mir-1 stem loop is referred to in FlyBase by the symbol Dmel\mir-1 (CR43027, FBgn0262455). 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: regulation of Notch signaling pathway; cardiac cell differentiation. 9 alleles are reported. The phenotypes of these alleles are annotated with: abdominal 7 dorsal acute muscle 1; mesothoracic dorsal acute muscle 1; metathoracic dorsal acute muscle 1; cardioblast; embryonic/larval somatic muscle. It has one annotated transcript. Gene sequence location is 2L:20487441..20487531.

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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FB2011_10

FB2012_01

Sequence features

BKN40953

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

38C8-38C8

Limits computationally determined from genome sequence between P{EP}CG16798^EP401&P{lacW}k07219 and P{lacW}k02501&P{lacW}k14810

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-1 for information on other features

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

Comments on Gene Model

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

mir-1-RM

FBtr0304487

mir-1-RA

FBtr0304488

Additional Transcript Data & Comments

Reported size (kB)

Comments

External Data

Crossreferences

miRBase - the home of microRNA data

•

MI0000116

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Name

AJ421756

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

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 5 -- 11

mesoderm

(Biemar et al., 2005)

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage -- adult stage

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

Additional Descriptive Data

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

(Sempere et al., 2003)

Expression increases with time to a peak in the first larval instar, then decreases. Expression levels in male and female adults are comparable to that in first instar larvae.

(Aravin et al., 2003)

mir-1 transcript is expressed in embryonic mesoderm and mesoderm-derived tissues.

(Biemar et al., 2005)

Marker for

Subcellular Localization

CV Term

Notes

High-Throughput Expression Data

Untitled Document detailed view

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

modENCODE Temporal Expression Data (Graveley et al., 2011)
FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)

Expression Clusters

External Data & Images

Linkouts

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

lethal | embryonic stage

mir-1^Δ31kb

lethal | embryonic stage, with Scer\GAL4^da.G32

mir-1^Scer\UAS.cKa

lethal | embryonic stage, with Scer\GAL4^how-24B

mir-1^Scer\UAS.cKa

lethal | larval stage

mir-1^Δ31kb

lethal | recessive | second instar larval stage

mir-1^KO

Other Phenotypes

Allele

hypoactive | larval stage | recessive

mir-1^KO

Phenotype manifest in

Allele

abdominal 7 dorsal acute muscle 1

mir-1^Δ31kb

cardioblast

mir-1^Δ31kb

cardioblast, with Scer\GAL4^da.G32

mir-1^Scer\UAS.cKa

cardioblast, with Scer\GAL4^how-24B

mir-1^Scer\UAS.cKa

embryonic/larval somatic muscle

mir-1^Δ31kb

embryonic/larval somatic muscle, with Scer\GAL4^da.G32

mir-1^Scer\UAS.cKa

embryonic/larval somatic muscle, with Scer\GAL4^how-24B

mir-1^Scer\UAS.cKa

embryonic/larval somatic muscle | second instar larval stage

mir-1^KO

mesothoracic dorsal acute muscle 1

mir-1^Δ31kb

metathoracic dorsal acute muscle 1

mir-1^Δ31kb

visceral muscle of larval heart & embryonic/larval pericardial cell

mir-1^Δ31kb

Classical Alleles ( 2 )

For All Classical Alleles Show

Allele of mir-1	Class	Mutagen	Stocks	Known lesion
mir-1^KO		FLPase SCEI endonuclease recombination I-CreI endonuclease	0	Yes
mir-1^Δ31kb		FLPase	0	Yes

Alleles Carried on Transgenic Constructs ( 7 )

For All Alleles Carried on Transgenic Constructs Show

Allele of mir-1	Mutagen	Known lesion
mir-1^+t8.6	in vitro construct - genomic fragment	Yes
mir-1^8.6.XhoI	in vitro construct - site directed mutagenesis	Yes
mir-1^{KO.Scer\SceI.RS}	in vitro construct	Yes
mir-1^Scer\UAS.cKa	in vitro construct - regulatory fusion in vitro construct - genomic fragment	Yes
mir-1^{Scer\UAS.P\T.cSa}	in vitro construct - regulatory fusion	Yes
mir-1^{Scer\UAS.T:Disc\RFP}	in vitro construct - regulatory fusion in vitro construct - coding region fusion	Yes
mir-1^αTub84B.PS	in vitro construct - regulatory fusion	Yes

Aneuploid Aberrations

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

UAS construct

reporter construct

P{mir-1-lacZ.H-Pelican}

characterization construct

P{FRT(w⁺.mir-1^{KO.Scer\SceI.RS})}

P{mir-1^8.6.XhoI}

P{mir-1^+t8.6}

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

cardiac cell differentiation

inferred from mutant phenotype

(Kwon et al., 2005)

regulation of Notch signaling pathway

inferred from mutant phenotype

(Kwon et al., 2005)

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

Protein-protein

Interacting group

Assay

References

Summary of Genetic Interactions

Interacts with

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

mir-1 allele

Gene

References

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0262455

Orthologs

Genome-wide drosophilid orthologs

Curated drosophilid orthologs

Dpse\mir-1

Linkouts

Stocks & Reagents

Stocks Listed in FlyBase ( 0 )

Genomic Clones ( 3 )

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

•

170875

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-1 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 CR32958 to CR43027 to reflect this change.

(FlyBase Genome Annotators, 2010)

Other Comments

Tiling experiments indicate that the mir-1 gene is 2.9kb in length. mir-1 is directly activated by dl amd twi.

(Biemar et al., 2005)

mir-1 is not required for the formation or physiological function of the larval musculature, but is required for the dramatic post-mitotic growth of larval muscle.

(Sokol and Ambros, 2005)

New annotation (CR32958) in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

External Crossreferences & Linkouts

Sequence Crossreferences

DDBJ / EMBL / GenBank

•

AJ421756

Entrez Gene - A searchable database of RefSeq genes.

•

3772713

Other Crossreferences

miRBase - the home of microRNA data

•

MI0000116

Linkouts

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0262455

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

•

FBgn0262455

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

•

170875

modMine - Data generated by the modENCODE project.

•

FBgn0262455

Synonyms & Secondary IDs ( 14 )

Reported As

Symbol Synonym

CR32958

CR43027

(FlyBase Genome Annotators, 2010, )

dme-mir-1

(Huang and Gu, 2007)

DmiR-1

(Taylor, 2006, Sokol and Ambros, 2005, Taylor, 2006)

dmiR-1

(Kwon et al., 2005)

mir-1

(FlyBase Genome Annotators, 2010, Zeitlinger et al., 2007, Sandmann et al., 2007, Neumuller et al., 2008, Sandmann et al., 2006, Liu et al., 2009, Liu et al., 2007, Martin et al., 2009, Ruby et al., 2007, Schnall-Levin et al., 2010)

Mir-1

(Robins, 2005)

Mir1

(Olson, 2006)

MiR-1

(Yang et al., 2009)

miR1

(Berdnik et al., 2008)

mirR-1

(Haley et al., 2008)

transfrag 8

(Biemar et al., 2006)

Name Synonym

mir-1

miR-1

(Easow et al., 2007)

mir-1 stem loop

Secondary FlyBase IDs

FBgn0046834
FBgn0262320

References ( 57 )

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All references relating to this gene ( 57 )

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Recent research papers ( 4 )

Ni et al., 2011, Nat. Methods 8(5): 405--407: A genome-scale shRNA resource for transgenic RNAi in Drosophila. [FBrf0213581]
Qian et al., 2011, J. Cell Biol. 193(7): 1181--1196: Tinman/Nkx2-5 acts via miR-1 and upstream of Cdc42 to regulate heart function across species. [FBrf0213988]
Ameres et al., 2010, Science 328(5985): 1534--1539: Target RNA-directed trimming and tailing of small silencing RNAs. [FBrf0211070]
Schnall-Levin et al., 2010, Proc. Natl. Acad. Sci. U.S.A. 107(36): 15751--15756: Conserved microRNA targeting in Drosophila is as widespread in coding regions as in 3'UTRs. [FBrf0211777]

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Recent reviews (0)

All reviews listed in FlyBase were published before 2010

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