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

Gene ID: 324724, updated on 9-Dec-2024

Summary

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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

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See dicer1 in Genome Data Viewer
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_007128.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137488090 Neighboring gene goosecoid Neighboring gene kinesin family member 11 Neighboring gene solute carrier family 22 member 15

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Histological Characterization of the Dicer1 Mutant Zebrafish Retina. Akhtar S, et al. J Ophthalmol, 2015. PMID 26124959, Free PMC Article
  2. The microRNA-producing enzyme Dicer1 is essential for zebrafish development. Wienholds E, et al. Nat Genet, 2003 Nov. PMID 14528306
  3. Site-specific DICER and DROSHA RNA products control the DNA-damage response. Francia S, et al. Nature, 2012 Aug 9. PMID 22722852, Free PMC Article
  4. Regulation of zebrafish fin regeneration by microRNAs. Thatcher EJ, et al. Proc Natl Acad Sci U S A, 2008 Nov 25. PMID 19015519, Free PMC Article
  5. RNAi-mediated gene silencing in zebrafish triggered by convergent transcription. Andrews OE, et al. Sci Rep, 2014 Jun 9. PMID 24909225, Free PMC Article

See all (34) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. 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.
  2. 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.
  3. 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.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Markers

Homology

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
XP_005158722.1
XP_005158723.1
XP_021322789.1
XP_021322790.1

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)

  1. 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

  1. NC_007128.7 Reference GRCz11 Primary Assembly

    Range
    19419989..19476166 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. 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

  2. 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

  3. 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

  4. 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

Reference GRCz11 ALT_DRER_TU_2

Genomic

  1. NW_018395327.1 Reference GRCz11 ALT_DRER_TU_2

    Range
    272996..317568 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6TV19.2 GenPept UniProtKB/Swiss-Prot:Q6TV19

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