DCL2 dicer-like 2 [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: DCL2
Official Full Name: dicer-like 2
Primary source: TAIR:AT3G03300
Locus tag: AT3G03300
See related: Araport:AT3G03300
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28
Summary: Encodes a Dicer-like protein that functions in the antiviral silencing response in turnip-crinkle virus-infected plants but not in TMV or CMV-strain-Y-infected plants. Involved in the production of ta-siRNAs. Partially antagonizes the production of miRNAs by DCL1. Substitutes for DCL4 to produce viral siRNA when DCL4 is missing or inhibited. Able to produce siRNAs but not miRNAs.
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Genomic context

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See DCL2 in Genome Data Viewer

Location:: chromosome: 3

Exon count:: 25

Sequence:: Chromosome: 3; NC_003074.8 (767880..776214, complement)

Chromosome 3 - NC_003074.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003074.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Evidence for an RNAi-independent role of Arabidopsis DICER-LIKE2 in growth inhibition and basal antiviral resistance.
Title: Evidence for an RNAi-independent role of Arabidopsis DICER-LIKE2 in growth inhibition and basal antiviral resistance.
Atypical molecular features of RNA silencing against the phloem-restricted polerovirus TuYV.
Title: Atypical molecular features of RNA silencing against the phloem-restricted polerovirus TuYV.
Characterization of a DCL2-Insensitive Tomato Bushy Stunt Virus Isolate Infecting Arabidopsis thaliana.
Title: Characterization of a DCL2-Insensitive Tomato Bushy Stunt Virus Isolate Infecting Arabidopsis thaliana.
DCL2 is crucial for RDR6-dependent systemic Posttranscriptional gene silencing.
Title: A Genetic Screen for Impaired Systemic RNAi Highlights the Crucial Role of DICER-LIKE 2.
DCL2- and RDR6-dependent transitive silencing of SMXL4 and SMXL5 in Arabidopsis dcl4 mutants causes defective phloem transport and carbohydrate over-accumulation
Title: DCL2- and RDR6-dependent transitive silencing of SMXL4 and SMXL5 in Arabidopsis dcl4 mutants causes defective phloem transport and carbohydrate over-accumulation.
DCL2/4-dependent and -independent RNA silencing pathways are involved, and may crosstalk with basal innate immunity pathways, in host defense and in cross-protection.
Title: Genetic analyses of the FRNK motif function of Turnip mosaic virus uncover multiple and potentially interactive pathways of cross-protection.
AGO2 and HEN1 participate in the DCL2-mediated antiviral defense to ensure the survival of Turnip crinkle virus-infected plants at high temperature.
Title: Temperature-dependent survival of Turnip crinkle virus-infected arabidopsis plants relies on an RNA silencing-based defense that requires dcl2, AGO2, and HEN1.
Data revealed that AtDCL2 is also preferentially expressed in the Arabidopsis egg cell.
Title: DCL2 is highly expressed in the egg cell in both rice and Arabidopsis.
We have demonstrated that DCLs 2, 3 and 4 are dispensable for Salicylic acid-induced resistance to Tobacco Mosaic Virus and Cucumber Mosaic Virus.
Title: Effects of DICER-like proteins 2, 3 and 4 on cucumber mosaic virus and tobacco mosaic virus infections in salicylic acid-treated plants.
Cross-protection by Fny-CMV2b against Fny-CMV infection was not abolished in dcl2, or dcl4 mutant plants.
Title: Effects of dicer-like endoribonucleases 2 and 4 on infection of Arabidopsis thaliana by cucumber mosaic virus and a mutant virus lacking the 2b counter-defence protein gene.

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General gene information

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NM_001084632.1

Supported by ESTs:

NM_001337464.1

Supported by ESTs:

NM_111200.5

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables ribonuclease III activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in RNA processing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within RNAi-mediated antiviral immunity against RNA virus	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within defense response to virus	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within defense response to virus	IMP Inferred from Mutant Phenotype more info	PubMed
NOT involved_in miRNA processing	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within negative regulation of gene expression via chromosomal CpG island methylation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within ta-siRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	ISM Inferred from Sequence Model more info

General protein information

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Preferred Names: dicer-like 2

NP_001078101.1

dicer-like 2 (DCL2); FUNCTIONS IN: in 7 functions; INVOLVED IN: defense response to virus, maintenance of DNA methylation, production of ta-siRNAs involved in RNA interference; LOCATED IN: intracellular; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: DNA/RNA helicase, DEAD/DEAH box type, N-terminal (InterPro:IPR011545), Double-stranded RNA-binding (InterPro:IPR001159), Argonaute/Dicer protein, PAZ (InterPro:IPR003100), Ribonuclease III (InterPro:IPR000999), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Dicer double-stranded RNA-binding fold (InterPro:IPR005034), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021); BEST Arabidopsis thaliana protein match is: dicer-like 4 (TAIR:AT5G20320.1); Has 11820 Blast hits to 10882 proteins in 2832 species: Archae - 232; Bacteria - 5768; Metazoa - 1870; Fungi - 1100; Plants - 675; Viruses - 26; Other Eukaryotes - 2149 (source: NCBI BLink).

NP_001189798.1

dicer-like 2 (DCL2); FUNCTIONS IN: in 7 functions; INVOLVED IN: defense response to virus, maintenance of DNA methylation, production of ta-siRNAs involved in RNA interference; LOCATED IN: intracellular; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: DNA/RNA helicase, DEAD/DEAH box type, N-terminal (InterPro:IPR011545), Double-stranded RNA-binding (InterPro:IPR001159), Argonaute/Dicer protein, PAZ (InterPro:IPR003100), Ribonuclease III (InterPro:IPR000999), DEAD-like helicase, N-terminal (InterPro:IPR014001), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Dicer double-stranded RNA-binding fold (InterPro:IPR005034), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021); BEST Arabidopsis thaliana protein match is: dicer-like 4 (TAIR:AT5G20320.1).

NP_566199.4

dicer-like 2 (DCL2); FUNCTIONS IN: in 7 functions; INVOLVED IN: defense response to virus, maintenance of DNA methylation, production of ta-siRNAs involved in RNA interference; LOCATED IN: intracellular; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: DNA/RNA helicase, DEAD/DEAH box type, N-terminal (InterPro:IPR011545), Double-stranded RNA-binding (InterPro:IPR001159), Argonaute/Dicer protein, PAZ (InterPro:IPR003100), Ribonuclease III (InterPro:IPR000999), DEAD-like helicase, N-terminal (InterPro:IPR014001), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Dicer double-stranded RNA-binding fold (InterPro:IPR005034), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021); BEST Arabidopsis thaliana protein match is: dicer-like 4 (TAIR:AT5G20320.1); Has 12581 Blast hits to 11282 proteins in 2839 species: Archae - 320; Bacteria - 5925; Metazoa - 2075; Fungi - 1253; Plants - 706; Viruses - 26; Other Eukaryotes - 2276 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003074.8 Reference assembly

Range

767880..776214 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001202869.2 → NP_001189798.1 dicer-like 2 [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_001189798.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q1KL57, Q1KL58, Q3EBC8, Q9M9P8

UniProtKB/TrEMBL

A0A7G2EHZ4

Conserved Domains (6) summary

cd00593
Location:1164 → 1318

RIBOc; Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-transcriptional ...

cd02844
Location:807 → 937

PAZ_CAF_like; PAZ domain, CAF_like subfamily. CAF (for carpel factory) is a plant homolog of Dicer. CAF has been implicated in flower morphogenesis and in early Arabidopsis development and might function through posttranscriptional regulation of specific mRNA ...

cd18802
Location:371 → 500

SF2_C_dicer; C-terminal helicase domain of the endoribonuclease Dicer

cd18034
Location:24 → 222

DEXHc_dicer; DEXH-box helicase domain of endoribonuclease Dicer

pfam03368
Location:559 → 637

Dicer_dimer; Dicer dimerization domain

cl00054
Location:1321 → 1382

DSRM_SF; double-stranded RNA binding motif (DSRM) superfamily
NM_111200.5 → NP_566199.4 dicer-like 2 [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_566199.4

Status: REVIEWED

UniProtKB/Swiss-Prot

Q1KL57, Q1KL58, Q3EBC8, Q9M9P8

UniProtKB/TrEMBL

A0A7G2EHZ4

Conserved Domains (6) summary

cd00593
Location:1164 → 1318

RIBOc; Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-transcriptional ...

cd02844
Location:807 → 937

PAZ_CAF_like; PAZ domain, CAF_like subfamily. CAF (for carpel factory) is a plant homolog of Dicer. CAF has been implicated in flower morphogenesis and in early Arabidopsis development and might function through posttranscriptional regulation of specific mRNA ...

cd18802
Location:371 → 500

SF2_C_dicer; C-terminal helicase domain of the endoribonuclease Dicer

cd18034
Location:24 → 222

DEXHc_dicer; DEXH-box helicase domain of endoribonuclease Dicer

pfam03368
Location:559 → 637

Dicer_dimer; Dicer dimerization domain

cl00054
Location:1321 → 1382

DSRM_SF; double-stranded RNA binding motif (DSRM) superfamily
NM_001337464.1 → NP_001327050.1 dicer-like 2 [Arabidopsis thaliana]

Status: REVIEWED

UniProtKB/TrEMBL

A0A1I9LR45, A0A654FE65
NM_001084632.1 → NP_001078101.1 dicer-like 2 [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_001078101.1

Status: REVIEWED

UniProtKB/TrEMBL

A0A654FE65

Conserved Domains (8) summary

smart00358
Location:1309 → 1369

DSRM; Double-stranded RNA binding motif

COG0571
Location:1137 → 1370

Rnc; dsRNA-specific ribonuclease [Transcription]

COG1111
Location:110 → 475

MPH1; ERCC4-related helicase [Replication, recombination and repair]

cd00046
Location:71 → 178

DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

cd00593
Location:1150 → 1304

RIBOc; RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in ...

pfam00271
Location:368 → 475

Helicase_C; Helicase conserved C-terminal domain

pfam03368
Location:546 → 623

Dicer_dimer; Dicer dimerization domain

cl00301
Location:793 → 923

PAZ; PAZ domain, named PAZ after the proteins Piwi Argonaut and Zwille. PAZ is found in two families of proteins that are essential components of RNA-mediated gene-silencing pathways, including RNA interference, the piwi and Dicer families. PAZ functions as a ...