dicer1 dicer 1, ribonuclease type III [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: dicer1provided by ZNC
Official Full Name: dicer 1, ribonuclease type IIIprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-3445
See related: Ensembl:ENSDARG00000001129 AllianceGenome:ZFIN:ZDB-GENE-030131-3445
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: fc39d11; fc74b05; wu:fc39d11; wu:fc74b05
Summary: Enables pre-miRNA binding activity. Acts upstream of or within with a positive effect on pre-miRNA processing. Acts upstream of or within regulation of neurogenesis; regulatory ncRNA-mediated gene silencing; and ventricular system development. Predicted to be part of RISC complex and RISC-loading complex. Predicted to be active in cytoplasm and nucleus. Is expressed in several structures, including heart; integument; liver; nervous system; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in DICER1 syndrome; gastrointestinal system cancer (multiple); multinodular goiter; nephroma; and pleuropulmonary blastoma. Orthologous to human DICER1 (dicer 1, ribonuclease III). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 17

Exon count:: 30

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	17	NC_007128.7 (19419989..19476166, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	17	NC_007128.6 (19400153..19456369, complement)

Chromosome 17 - NC_007128.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Dicer bound to TARBP2, but Dicer alone exhibited significant pre-miRNA processing activity.
Title: Cloning, expression, and characterization of the zebrafish Dicer and Drosha enzymes.
Results suggest that dicer1 participates in the gene regulatory network governing zebrafish melanocyte differentiation by controlling the expression of mitfa and sox10.
Title: Dicer1 is required for pigment cell and craniofacial development in zebrafish.
Dynamic miRNA expression patterns during retinal regeneration in zebrafish: reduced dicer or miRNA expression suppresses proliferation of Muller glia-derived neuronal progenitor cells
Title: Dynamic miRNA expression patterns during retinal regeneration in zebrafish: reduced dicer or miRNA expression suppresses proliferation of Müller glia-derived neuronal progenitor cells.

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General gene information

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Markers

fc74b05.x1 (e-PCR)
- UniSTS:188244

fc39d11.x1 (e-PCR)
- UniSTS:188113

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA endonuclease activity, producing 5'-phosphomonoesters	IEA Inferred from Electronic Annotation more info
enables deoxyribonuclease I activity	IBA Inferred from Biological aspect of Ancestor more info
enables endonuclease activity	IEA Inferred from Electronic Annotation more info
enables helicase activity	IEA Inferred from Electronic Annotation more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nuclease activity	IEA Inferred from Electronic Annotation more info
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
enables pre-miRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables ribonuclease III activity	IBA Inferred from Biological aspect of Ancestor more info
enables ribonuclease III activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within RNA processing	IEA Inferred from Electronic Annotation more info
involved_in apoptotic DNA fragmentation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of cranial skeletal system development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in global gene silencing by mRNA cleavage	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of melanocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within miRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within miRNA-mediated gene silencing by mRNA destabilization	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within miRNA-mediated post-transcriptional gene silencing	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of neural crest cell development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in pre-miRNA processing	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within_positive_effect pre-miRNA processing	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within pre-miRNA processing	IEA Inferred from Electronic Annotation more info
involved_in pre-miRNA processing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within_positive_effect pre-miRNA processing	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within pre-miRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in pre-miRNA processing	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of neurogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulatory ncRNA-mediated gene silencing	IEA Inferred from Electronic Annotation more info
involved_in siRNA processing	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within siRNA processing	IEA Inferred from Electronic Annotation more info
involved_in siRNA processing	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within ventricular system development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within ventricular system development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of RISC complex	ISS Inferred from Sequence or Structural Similarity more info
part_of RISC-loading complex	IBA Inferred from Biological aspect of Ancestor more info
part_of RISC-loading complex	ISS Inferred from Sequence or Structural Similarity more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: endoribonuclease Dicer

Names: Dicer1, Dcr-1 homolog; dsRNA-specific ribonuclease

NP_001154925.1

EC 3.1.26.3

XP_005158722.1

EC 3.1.26.3

XP_005158723.1

EC 3.1.26.3

XP_021322789.1

EC 3.1.26.3

XP_021322790.1

EC 3.1.26.3

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001161453.2 → NP_001154925.1 endoribonuclease Dicer

See identical proteins and their annotated locations for NP_001154925.1

Status: VALIDATED

Source sequence(s)

AL772219

UniProtKB/Swiss-Prot

Q6TV19

UniProtKB/TrEMBL

A0A8M9PNL3

Related

ENSDARP00000045880.5, ENSDART00000045881.7

Conserved Domains (5) summary

smart00535
Location:1278 → 1369

RIBOc; Ribonuclease III family

COG0571
Location:1609 → 1861

Rnc; dsRNA-specific ribonuclease [Transcription]

cd02843
Location:872 → 994

PAZ_dicer_like; PAZ domain, dicer_like subfamily. Dicer is an RNAse involved in cleaving dsRNA in the RNA interference pathway. It generates dsRNAs which are approximately 20 bp long (siRNAs), which in turn target hydrolysis of homologous RNAs. PAZ domains are named ...

pfam03368
Location:616 → 704

Dicer_dimer; Dicer dimerisation domain

cl17041
Location:27 → 586

helicase_insert_domain; helicase_insert_domain

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007128.7 Reference GRCz11 Primary Assembly

Range

19419989..19476166 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005158665.5 → XP_005158722.1 endoribonuclease Dicer isoform X1

See identical proteins and their annotated locations for XP_005158722.1

UniProtKB/Swiss-Prot

Q6TV19

UniProtKB/TrEMBL

A0A8M9PNL3

Conserved Domains (5) summary

smart00535
Location:1278 → 1369

RIBOc; Ribonuclease III family

COG0571
Location:1609 → 1861

Rnc; dsRNA-specific ribonuclease [Transcription]

cd02843
Location:872 → 994

PAZ_dicer_like; PAZ domain, dicer_like subfamily. Dicer is an RNAse involved in cleaving dsRNA in the RNA interference pathway. It generates dsRNAs which are approximately 20 bp long (siRNAs), which in turn target hydrolysis of homologous RNAs. PAZ domains are named ...

pfam03368
Location:616 → 704

Dicer_dimer; Dicer dimerisation domain

cl17041
Location:27 → 586

helicase_insert_domain; helicase_insert_domain
XM_021467115.2 → XP_021322790.1 endoribonuclease Dicer isoform X1

UniProtKB/Swiss-Prot

Q6TV19

UniProtKB/TrEMBL

A0A8M9PNL3

Conserved Domains (5) summary

smart00535
Location:1278 → 1369

RIBOc; Ribonuclease III family

COG0571
Location:1609 → 1861

Rnc; dsRNA-specific ribonuclease [Transcription]

cd02843
Location:872 → 994

PAZ_dicer_like; PAZ domain, dicer_like subfamily. Dicer is an RNAse involved in cleaving dsRNA in the RNA interference pathway. It generates dsRNAs which are approximately 20 bp long (siRNAs), which in turn target hydrolysis of homologous RNAs. PAZ domains are named ...

pfam03368
Location:616 → 704

Dicer_dimer; Dicer dimerisation domain

cl17041
Location:27 → 586

helicase_insert_domain; helicase_insert_domain
XM_005158666.5 → XP_005158723.1 endoribonuclease Dicer isoform X1

See identical proteins and their annotated locations for XP_005158723.1

UniProtKB/Swiss-Prot

Q6TV19

UniProtKB/TrEMBL

A0A8M9PNL3

Related

ENSDARP00000133052.2, ENSDART00000170429.2

Conserved Domains (5) summary

smart00535
Location:1278 → 1369

RIBOc; Ribonuclease III family

COG0571
Location:1609 → 1861

Rnc; dsRNA-specific ribonuclease [Transcription]

cd02843
Location:872 → 994

PAZ_dicer_like; PAZ domain, dicer_like subfamily. Dicer is an RNAse involved in cleaving dsRNA in the RNA interference pathway. It generates dsRNAs which are approximately 20 bp long (siRNAs), which in turn target hydrolysis of homologous RNAs. PAZ domains are named ...

pfam03368
Location:616 → 704

Dicer_dimer; Dicer dimerisation domain

cl17041
Location:27 → 586

helicase_insert_domain; helicase_insert_domain
XM_021467114.2 → XP_021322789.1 endoribonuclease Dicer isoform X1

UniProtKB/Swiss-Prot

Q6TV19

UniProtKB/TrEMBL

A0A8M9PNL3

Conserved Domains (5) summary

smart00535
Location:1278 → 1369

RIBOc; Ribonuclease III family

COG0571
Location:1609 → 1861

Rnc; dsRNA-specific ribonuclease [Transcription]

cd02843
Location:872 → 994

PAZ_dicer_like; PAZ domain, dicer_like subfamily. Dicer is an RNAse involved in cleaving dsRNA in the RNA interference pathway. It generates dsRNAs which are approximately 20 bp long (siRNAs), which in turn target hydrolysis of homologous RNAs. PAZ domains are named ...

pfam03368
Location:616 → 704

Dicer_dimer; Dicer dimerisation domain

cl17041
Location:27 → 586

helicase_insert_domain; helicase_insert_domain