• Home
• Tools
  • BLAST
  • GBrowse
  • QueryBuilder
  • TermLink
  • ImageBrowse
  • Interactions Browser
  • Apollo
  • CytoSearch
  • QuickSearch
  • Batch Download
  • Coordinate Converter
  • Google™ FlyBase
  • Find A Person
  • Update An Address
  • Add A New Person
• Files
  • Downloads:
  • Precomputed files
  • Archived data
  • Releases FTP
  • Genomes FTP
  • Lists:
  • Transposons (Dmel)
  • Transposons (other)
  • Vectors & Constructs
  • Anatomical Terms
  • Map Conversion
• Species
  • Phylogeny
  • Synteny Table
  • Drosophilidae
  • Abbreviations
• Documents
  • About FlyBase
  • Reference Manual:
  • Sections
  • Contents
  • Nomenclature
  • Release Notes
• Resources
  • All resources
  • Interactive Fly
  • Textpresso for Fly
  • AAA site
  • BDGP
  • DHGP
  • DGRC
  • Model Organisms
  • Stock Collections:
  • Bloomington
  • DrosDel
  • Ehime
  • Exelixis (Harvard)
  • GDP (Baylor)
  • Kyoto
  • NIG-Fly
  • Szeged
  • Tucson
  • VDRC
• News
  • News
  • FlyBase Forum
  • FlyBase Positions
  • Meetings
  • Courses
  • Fly Board
  • White papers
  • Funding
  • bionet.dros
• Help
  • Google™ FlyBase
  • Site Map
  • FAQs
  • Report help
  • New to Flies
  • Pers. comm.
  • Author guidelines
  • Known Problems
  • Contact FlyBase
• Archives
  • Prior Home Page
  • R4.3 BLAST
  • R4.3 GBrowse
  • Older Archives

Gene Dmel\Dcr-2

General Information
Symbol	Dmel\Dcr-2	Species	D. melanogaster
Name	Dicer-2	Annotation symbol	CG6493
Feature type	protein_coding_gene	FlyBase ID	FBgn0034246
Created / Updated	2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)	2R	Recombination map
Cytogenetic map	54C10-54C10	Sequence location	2R:13,462,484..13,469,011 [-]
Map ( GBrowse )	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene Dicer-2 is referred to in FlyBase by the symbol Dcr-2 (CG6493, FBgn0034246). It has the cytological map location 54C10. Its sequence location is 2R:13462484..13469011. Its molecular function is described as: double-stranded RNA binding; helicase activity; ATP-dependent helicase activity; ATP binding; ribonuclease III activity. It is involved in the biological processes: RNA interference; RNA interference, production of siRNA; RNA interference, siRNA loading onto RISC; RNA interference, targeting of mRNA for destruction; chromatin silencing; defense response to virus. 26 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide.
External Summaries
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 54C10-54C10   Limits computationally determined from genome sequence between P{EP}MESR4EP386&P{EP}POSHEP1206 and P{PZ}l(2)1050510505
Experimentally Determined Cytological Location
Cytogenetic map Notes References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology) References Gene Order (overall orientation not stated) References
Gene Model & Products
Please see the GBrowse view of Dmel\Dcr-2 for information on other features
Comments on Gene Model
	5prime splice site of intron 6 as predicted by Genscan and Genie not supported by sequence data in SwissProt Q95YG3. Currently no EST evidence for this part of the transcript. Splice site mmoved to make sequence agree with SwissProt evidence.
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Dcr-2-RA FBtr0086904  NM_079054   5665   1722
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kD) Length (aa) Theoretical pI RefSeq ID GenBank protein Dcr-2-PA   FBpp0086061   197.8   1722   6.84     NP_523778   AAF57830
Additional Polypeptide Data & Comments
Reported size (kD)
Comments
External Data
Linkouts	PANTHER - Protein classification by function, families, and pathways • FBgn0034246
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Ribonuclease III (IPR000999) Double-stranded RNA binding (IPR001159) DNA/RNA helicase, C-terminal (IPR001650) Argonaute and Dicer protein, PAZ (IPR003100) Protein of unknown function DUF283 (IPR005034) DNA/RNA helicase, DEAD/DEAH box type, N-terminal (IPR011545) DEAD-like helicase, N-terminal (IPR014001) Helicase, superfamily 1 and 2, ATP-binding (IPR014021)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA141809   AA438616   AA696387   AA802516   AA803809   AB073024 BAB69959   AE003802 AAF57830   AI512684   BG639464   BG639465   BG640151   BI635709   BP552099   BP556122   BP556123   BP560070   BP560071   BT011073   CA807710   CO154563   CO191637   CO282421   CO304990   CO311653   CO312333   CZ468331   CZ468332   CZ489251   DQ228792 ABB54745   DQ228793 ABB54746   DQ228794 ABB54747   DQ228795 ABB54748   DQ228796 ABB54749   DQ228797 ABB54750   DQ228798 ABB54751   DQ228799 ABB54752   EC056854   EC088051   EC210941   EC214569   EC248210   EC263768   EC266486   GM14331   LP12433
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q2Q3V4 Q2Q3V5 Q2Q3V6 Q2Q3V7 Q2Q3V8 Q2Q3V9 Q2Q3W0 Q2Q3W1 Q95YG3 A1ZAW0
Maps to
Does NOT map to
Identified with	SD11113 (BDGP Project Members, 2000-)
Mapped Features & Mutations
Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here Type Symbol & Location Additional Notes References point mutation Dcr-2[G31R] 2R:13,468,781..13,468,781 comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. evidence=experimental na_change=G13096139A pr_change=G31R|Dcr-2-PA reported_pr_change=G31R (Lee et al., 2004) point mutation Dcr-2[G173E] 2R:13,467,794..13,467,794 comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. evidence=experimental na_change=G13095152A pr_change=G173E|Dcr-2-PA reported_pr_change=G173E (Lee et al., 2004) point mutation Dcr-2[R416X] 2R:13,467,010..13,467,010 comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. evidence=experimental na_change=C13094368T pr_change=R416@|Dcr-2-PA reported_pr_change=R416@ (Lee et al., 2004) point mutation Dcr-2[C473Y] 2R:13,466,775..13,466,775 comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. evidence=experimental na_change=G13094133A pr_change=C473Y|Dcr-2-PA (Lee et al., 2004) point mutation Dcr-2[A500V] 2R:13,466,694..13,466,694 comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. evidence=experimental na_change=C13094052T pr_change=A500V|Dcr-2-PA reported_pr_change=A500V (Lee et al., 2004) sequence variant Dcr-2[L811fsX] 2R:13,465,636..13,465,638 comment=Leu 811 is replaced by FGIRSLCWIVAARRTPTWX. evidence=experimental (Lee et al., 2004)
External Data
Linkouts	DEDB - Drosophila exon database: splicing graphs • 12103
Crossreferences
Expression Data
FlyBase-Curated Data
Transcript and Protein data	Please see the FlyBase Gene Expression Report for details of gene expression from the literature.
Summary of Transcript Expression
Stage Tissue/Position Reference
Marker for
Subcellular Localization
CV Term
Summary of Polypeptide Expression
Stage Tissue/Position Reference
Marker for
Subcellular Localization
CV Term
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0034246 GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies • FBgn0034246
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | recessive Dcr-2L811fsX Other Phenotypes Allele wild-type Dcr-2A500V Dcr-2C473Y Dcr-2G31R Dcr-2L811fsX Dcr-2R416X suppressor of variegation | partially, with P{T1}T190-177 Dcr-2R416X suppressor of variegation | partially, with P{T1(-FRT)}T190-177 Dcr-2R416X immune response defective Dcr-2L811fsX Phenotype manifest in Allele
Classical Alleles ( 10 )
For All Classical Alleles Show
Allele of Dcr-2 Class Mutagen Stocks Known lesion Dcr-2+t7.2 0 Yes Dcr-2A500V ethyl methanesulfonate 0 Yes Dcr-2C473Y ethyl methanesulfonate 0 Yes Dcr-2G173E ethyl methanesulfonate 0 Yes Dcr-2G31R ethyl methanesulfonate 0 Yes Dcr-2L811fsX loss of function ethyl methanesulfonate 0 Yes Dcr-2R416X ethyl methanesulfonate 0 Yes Dcr-2c02925 piggyBac transposase 1 -- Dcr-2f06544 piggyBac transposase 2 -- Dcr-2unspecified 0 --
Alleles Carried on Transgenic Constructs ( 16 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Dcr-2 Class Mutagen Stocks Known lesion Dcr-2E1210V.t7.2 in vitro construct | site directed mutagenesis 0 Yes Dcr-2E1237A.t7.2 in vitro construct | site directed mutagenesis 0 Yes Dcr-2E1371K.E1617K.t7.2 in vitro construct | site directed mutagenesis 0 Yes Dcr-2E1371K.t7.2 in vitro construct | site directed mutagenesis 0 Yes Dcr-2E1617K.t7.2 in vitro construct | site directed mutagenesis 0 Yes Dcr-2GD11939 in vitro construct | RNAi in vitro construct | regulatory fusion 1 Yes Dcr-2Scer\UAS.cDa in vitro construct | regulatory fusion 8 Yes Dcr-2dsRNA.4580-5166 in vitro construct | RNAi 0 Yes Dcr-2dsRNA.cBa in vitro construct | RNAi 0 Yes Dcr-2dsRNA.cDa in vitro construct | RNAi 0 Yes Dcr-2dsRNA.cFa in vitro construct | RNAi 0 Yes Dcr-2dsRNA.cJa in vitro construct | RNAi 0 Yes Dcr-2dsRNA.cLa in vitro construct | RNAi 0 Yes Dcr-2dsRNA.cOa in vitro construct | RNAi 0 Yes Dcr-2dsRNA.cRa in vitro construct | RNAi 0 Yes Dcr-2dsRNA.cSa in vitro construct | RNAi 0 Yes
Aneuploid Aberrations
Useful duplication	Dp(2;Y)53D;57C
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data characterization construct P{Dcr-2E1210V.t7.2} NA P{Dcr-2E1237A.t7.2} NA P{Dcr-2E1371K.E1617K.t7.2} NA P{Dcr-2E1371K.t7.2} NA P{Dcr-2E1617K.t7.2} NA UAS construct P{GD11939} NA P{UAS-Dcr-2.D} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions PBac{PB}Dcr-2c02925 NA PBac{WH}Dcr-2f06544 NA
Related Comments
	Please look at the allele reports for the complete phenotype data
Gene Ontology: Function, Process & Cellular Component ( 13 )
Molecular Function
CV term Evidence References
ATP binding inferred from electronic annotation with InterPro:IPR001650, InterPro:IPR011545 (FlyBase Curators et al., 2004-)
ATP-dependent helicase activity inferred from electronic annotation with InterPro:IPR011545 (FlyBase Curators et al., 2004-)
double-stranded RNA binding inferred from sequence or structural similarity (Lasko, 2000) non-traceable author statement (Zenno, 2001.10.15) inferred from electronic annotation with InterPro:IPR001159 (FlyBase Curators et al., 2004-)
helicase activity inferred from sequence or structural similarity (Lasko, 2000) non-traceable author statement (Zenno, 2001.10.15)
ribonuclease III activity inferred from electronic annotation with InterPro:IPR000999 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
RNA interference inferred from direct assay (Bernstein et al., 2001) non-traceable author statement (Zenno, 2001.10.15) traceable author statement (Heinrichs, 2004) inferred from mutant phenotype (Lee et al., 2004)
RNA interference, production of siRNA inferred from direct assay (Liu et al., 2003) traceable author statement (Heinrichs, 2004) inferred from mutant phenotype (Lee et al., 2004) traceable author statement (He and Hannon, 2004) inferred from mutant phenotype (Vagin et al., 2006)
RNA interference, siRNA loading onto RISC inferred from mutant phenotype (Lee et al., 2004)
RNA interference, targeting of mRNA for destruction inferred from mutant phenotype (Lee et al., 2004)
chromatin silencing inferred from mutant phenotype (Grimaud et al., 2006)
defense response to virus inferred from mutant phenotype (Wang et al., 2006)
Cellular Component
CV term Evidence References
cytoplasm inferred from direct assay (Grimaud et al., 2006)
nucleus inferred from direct assay (Grimaud et al., 2006)
Sequence Ontology: Class of Gene
	protein_coding_gene   nuclear_gene
Interactions & Pathways
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions Dcr-2 allele Gene References
External Data
Linkouts	BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions • 62681
Orthologs
Genome-wide drosophilid orthologs	Dana\GF13246 Dere\GG21041 Dgri\GH20958 Dmoj\GI21295 Dper\GL10619 Dpse\GA19635 Dsec\GM19969 Dsim\Dcr-2 Dvir\GJ20897 Dwil\GK10670 Dyak\Dcr-2
Curated drosophilid orthologs	Dbii\Dcr-2 (Obbard et al., 2005.10.21) Dpse\GA19635   Dsim\Dcr-2 (Obbard et al., 2005.10.3, Obbard et al., 2005.10.3, Obbard et al., 2005.10.3, Obbard et al., 2005.10.3, Obbard et al., 2005.10.3, Obbard et al., 2005.10.3, Obbard et al., 2005.10.3, Obbard et al., 2005.10.3) Dtei\Dcr-2 (Obbard et al., 2005.10.3) Dyak\Dcr-2 (Obbard et al., 2005.10.3, Obbard et al., 2005.10.3, Obbard et al., 2005.10.3, Obbard et al., 2005.10.3, Obbard et al., 2005.10.3, Obbard et al., 2005.10.3, Obbard et al., 2005.10.3, Obbard et al., 2005.10.3)
Linkouts	InParanoid orthologs - Eukaryotic orthologs • ENSANGP00000016543 Anopheles gambiae (Ensembl) DDB0168963 Dictyostelium discoideum (Dictybase) NP_417062.1 Escherichia coliK12 (NCBI) SPCC188.13c Schizosaccharomyces pombe (Sanger)
Functional Complementation between Species
Inter-Species Misexpression Data
Produces phenotype in
Produces NO phenotype in
Stocks & Reagents
Stocks Listed in FlyBase ( 12 )
Bloomington	24648 P{UAS-Dcr-2.D}1 24646 P{UAS-Dcr-2.D}1, w1118 24650 w1118; P{UAS-Dcr-2.D}2 24651 w1118; P{UAS-Dcr-2.D}10 18987 w1118; PBac{WH}Dcr-2f06544/CyO 24644 P{UAS-Dcr-2.D}1, w1118; Pin1/CyO 24647 P{UAS-Dcr-2.D}1; wgSp-1, P{hs-hid.v2}2/CyO 24649 P{UAS-Dcr-2.D}1; Df(3L)Ly, sensLy-1, P{hs-hid.v3}3/TM3, Sb1 24645 P{UAS-Dcr-2.D}1, w1118; Df(3L)Ly, sensLy-1/TM3, Sb1
Harvard	- PBac{PB}Dcr-2c02925 - PBac{WH}Dcr-2f06544
VDRC	v25090 w1118; P{GD11939}v25090/TM3
Genomic Clones ( 2 )
	BACR21A09 BACR12C23
cDNA Clones ( 16 )
cDNA Clones, Fully Sequenced
BDGP DGC clones	SD11113
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	GM07586 LD12933 GM05742 LD44626 SD17147
Other clones	GM14331 EK160436 EN04356 CK02494 ESG019a.E21_H09 EK225660 EC31570 EK228508 EK246851 LP12433
RNAi & Array Information
Affy Oligo
Linkouts	DRSC - RNAi screening (Harvard): high-throughput cell culture data and design • FBgn0034246 GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data • FBgn0034246
Antibody Information
Other Information
Discoverer
Etymology
Identification
Position Effect Variegation Data
Relationship to Other Genes
Source for database identity of	Source for identity of: Dcr-2 CG6493 (Bernstein et al., 2001)
Source for database merge of
Additional comments
Comments About Role
	Dcr-2 is required for maintenance of long-distance chromosomal interactions between endogenous PcG target loci. (Grimaud et al., 2006) Dcr-2 is not required for repeat-associated small interfering RNA (rasiRNA) production (Vagin et al., 2006)
Comments About Molecular Function
	Dcr-2 protein alone efficiently cleaves dsRNA into siRNA. This enzymatic activity is not affected by association with r2d2 protein. Dcr-2 protein alone does not bind siRNA, but the r2d2/Dcr-2 protein complex binds siRNA and also facilitates the loading of siRNA onto the RNA-initiated silencing complex (RISC). This latter activity is dependent on the dsRNA-binding domains of the r2d2 protein. (Liu et al., 2003) The orientation of the Dcr-2/r2d2 protein heterodimer on the siRNA duplex determines which siRNA strand associates with the core RISC (RNA-induced silencing complex) protein AGO2. r2d2 protein binds the siRNA end with the greatest double-stranded character, thereby orienting the Dcr-2/r2d2 heterodimer on the siRNA duplex. Strong binding by the r2d2 protein requires a 5'-phosphate on the siRNA strand that is excluded from the RISC. (Tomari et al., 2004) Dcr-2 is in the top 2% of fastest-evolving Drosophila genes. (Obbard et al., 2006) The Dcr-2-r2d2 heterodimer acts as a gatekeeper for the assembly of AGO2 complexes, promoting the incorporation of siRNAs and disfavoring miRNAs as loading substrates for AGO2. A separate mechanism acts in parallel to favor miRNA/miRNA* duplexes and exclude siRNAs from assembly into AGO1 complexes. (Tomari et al., 2007)
Other Comments
	Expression is enriched in embryonic gonads. (Shigenobu et al., 2006)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_079054 RefSeq (Proteins) • NP_523778 DDBJ / EMBL / GenBank • AB073024 BAB69959 AE003802 AAF57830 BG640151 CZ468331 CZ468332 CZ489251 DQ228792 ABB54745 DQ228793 ABB54746 DQ228794 ABB54747 DQ228795 ABB54748 DQ228796 ABB54749 DQ228797 ABB54750 DQ228798 ABB54751 DQ228799 ABB54752 UniProtKB/TrEMBL • Q2Q3V4