Gene Dmel\mir-4

Crossreferences

Expression Data

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 4

organism | ubiquitous

• nucleus

Comment:probe reflects expression of primary transcript encompassing 8 mir genes between CG15125 and CG11018

embryonic stage 5

organism | 10-90% egg length

• nucleus

Comment:probe reflects expression of primary transcript encompassing 8 mir genes between CG15125 and CG11018

embryonic stage 5 -- 7

dorsal ectoderm | striped

• nucleus

Comment:probe reflects expression of primary transcript encompassing 8 mir genes between CG15125 and CG11018

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage

embryonic stage -- first instar larval stage

organism

(Aravin et al., 2003)

first instar larval stage

Additional Descriptive Data

Expression peaks at 2-4 hours of embryonic development.

(Aravin et al., 2003)

mir-4 transcript is ubquitously expressed in precellular embryos. At stage 5, transcript expression is repressed, first at the posterior pole of the embryo, then in a dorsal patch at the anterior of the embryo. Late in stage 5, transcript expression begins to be lost in the mesoderm and neural ectoderm in ventral and lateral regions. By late embryonic stage 5, expression is refined to transient stripes in the dorsal ectoderm These stripes become further refined to a single central band by embryonic stage 7. Expression is essentially lost by the onset of germband elongation, except for residual expression at the anterior tip of the embryo, and in the dorsal ectoderm. mir-4 transcript is localized to the nucleus at all stages.

Northern analysis of 24 microRNAs showed that the expression of mir-4, mir-5, mir-124 and mir-6 isoforms (mir-6-1, mir-6-2 and mir-6-3) is restricted to embryogenesis and the first larval instar with levels decreasing during the latter part of the first larval stage.

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

P{UAS-DsRed2-mir-286.mir-4.mir-5}

Alleles & Phenotypes

Summary of Allele Phenotypes

Phenotype manifest in

Allele

Classical Alleles ( 0 )

For All Classical Alleles Show

Allele of mir-4	Class	Mutagen	Stocks	Known lesion

Alleles Carried on Transgenic Constructs ( 2 )

For All Alleles Carried on Transgenic Constructs Show

Allele of mir-4	Class	Mutagen	Stocks	Known lesion
mir-4^+2.6		in vitro construct - genomic fragment	0	Yes
mir-4^{Scer\UAS.T:Disc\RFP-DsRed2}		in vitro construct - regulatory fusion in vitro construct - coding region fusion	0	Yes

Aneuploid Aberrations

Disrupted in

Df(2R)mir-309-6^Δ1

(Bushati et al., 2008)

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

UAS construct

characterization construct

P{mir-309-6.2.6}

Insertions

Type of insertions

Name

Expression data

Gene Ontology: Function, Process & Cellular Component ( 0 unique terms )

Terms Based on Experimental Evidence ( 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-4 allele

Gene

References

External Data

DroID - A comprehensive database of gene and protein interactions.

•

FBgn0262414

Orthologs

Genome-wide drosophilid orthologs

Curated drosophilid orthologs

Dpse\mir-4

Stocks & Reagents

Stocks Listed in FlyBase ( 0 )

Genomic Clones ( 1 )

BACR02J10

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

(FlyBase Genome Annotators, 2010)

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

•

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-4 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 CR33038 to CR42961 to reflect this change.

Other Comments

New annotation (CR33561) in release 4.1 of the genome annotation.

(FlyBase Genome Annotators, 2005)

mir-3, mir-4, mir-5, mir-6-1, mir-6-2 and mir-6-3 sequences are clustered within 900bp in 56D7-56E3.