FlyBase Gene Report: Dmel\piRNA

General Information

Symbol

Dmel\piRNA

Species

D. melanogaster

Name

piwi-associated RNA

Annotation Symbol

Feature Type

FlyBase ID

FBgn0263912

Gene Model Status

Unannotated

Stock Availability

None publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Interactive Fly

Also Known As

Piwi-interacting RNA, piRNAs

Function

Gene Ontology (GO) Annotations (0 terms)

Molecular Function (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Protein Domains (via Pfam)

Isoform displayed:

Pfam protein domains

InterPro name

classification

start

end

Protein Domains (via SMART)

Isoform displayed:

SMART protein domains

InterPro name

classification

start

end

Structure

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Sequence Ontology: Class of Gene

gene_group

(Rouget et al., 2010)

piRNA_gene

Transcript Data

Annotated Transcripts

Additional Transcript Data and Comments

Reported size (kB)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Polypeptides with Identical Sequences

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Crossreferences

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\piRNA using the Feature Mapper tool.

External Data

Crossreferences

Linkouts

Expression Data

Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

NA

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\piRNA in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\piRNA

View exonic expression by tissue for Dmel\piRNA

Bulk Downloads

RNA-Seq RPKM values for all genes

Reference

See Gelbart and Emmert, 2013 for analysis details and data files for all genes.

Developmental Proteome: Life Cycle

Developmental Proteome: Embryogenesis

External Data and Images

Linkouts

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 0 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 0 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of piRNA

Transgenic constructs containing regulatory region of piRNA

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 0 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (0)

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (0)

Mus musculus (laboratory mouse) (0)

Xenopus tropicalis (Western clawed frog) (0)

Danio rerio (Zebrafish) (0)

Caenorhabditis elegans (Nematode, roundworm) (0)

Anopheles gambiae (African malaria mosquito) (0)

Arabidopsis thaliana (thale-cress) (0)

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (0)

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:piRNA. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (0)

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 0 )

Allele

Disease

Evidence

References

Potential Models Based on Orthology ( 0 )

Human Ortholog

Disease

Evidence

References

Modifiers Based on Experimental Evidence ( 0 )

Allele

Disease

Interaction

References

Disease Associations of Human Orthologs (via DIOPT v9.1 and OMIM)

Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.

Homo sapiens (Human)

Gene name

Score

OMIM

OMIM Phenotype

DO term

Complementation?

Transgene?

Functional Complementation Data

Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.

Interactions

Summary of Physical Interactions

esyN Network Diagram

Other Interaction Browsers

Summary of Genetic Interactions

esyN Network Diagram

Other Interaction Browsers

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

Cytogenetic map

Sequence location

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (0)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Genomic Clones (0)

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 JBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

Other clones

Drosophila Genomics Resource Center cDNA clones

For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

See sequence features piRNA_cluster_flamenco and piRNA_cluster_42AB.

(FlyBase Genome Annotators, 2012)

Relationship to Other Genes

Source for database merge of

Additional comments

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (6)

Reported As

Symbol Synonym

piR

(Rojas-Ríos and Simonelig, 2018)

piRNA

(Yun et al., 2024, Iwama and Moran, 2023, Scarpa and Kofler, 2023, van Lopik et al., 2023, Wierzbicki and Kofler, 2023, Wierzbicki et al., 2023, Benoit et al., 2022, Lama et al., 2022, Wierzbicki et al., 2022, Chen et al., 2021, Chen et al., 2021, Fabry et al., 2021, Huang and Wong, 2021, Huang et al., 2021, Lauria Sneideman and Meller, 2021, Liu et al., 2021, Rayford et al., 2021, Rosendo Machado et al., 2021, Tsai and Huang, 2021, Wang et al., 2021, Adashev et al., 2020, Bachtrog, 2020, Cacchione et al., 2020, Ellison and Cao, 2020, Ellison et al., 2020, Ghanim et al., 2020, Komarov et al., 2020, Luo et al., 2020, Mérel et al., 2020, Mugat et al., 2020, Ninova et al., 2020, Saint-Leandre et al., 2020, Saint-Leandre et al., 2020, Sato and Siomi, 2020, Tindell et al., 2020, Yamaguchi et al., 2020, Zhang et al., 2020, Batki et al., 2019, Chang et al., 2019, Courret et al., 2019, Cusumano et al., 2019, Duc et al., 2019, ElMaghraby et al., 2019, Fabry et al., 2019, Ge et al., 2019, Hirakata and Siomi, 2019, Ishizu et al., 2019, Kneuss et al., 2019, Kofler, 2019, Kolliopoulou et al., 2019, Kotov et al., 2019, Maksimov and Koryakov, 2019, Marsano et al., 2019, Munafò et al., 2019, Nelson et al., 2019, Radion et al., 2019, Russo et al., 2019, Saha and Mishra, 2019, Specchia et al., 2019, Stein et al., 2019, Story et al., 2019, Trcek and Lehmann, 2019, Zhao et al., 2019, Akulenko et al., 2018, Barckmann et al., 2018, Cosacak et al., 2018, Czech et al., 2018, Moon et al., 2018, Oriel and Lasko, 2018, Parikh et al., 2018, Radion et al., 2018, Sato and Siomi, 2018, Sun et al., 2018, Teo et al., 2018, Théron et al., 2018, van den Beek et al., 2018, Wakisaka et al., 2018, Wang et al., 2018, Yamashiro and Siomi, 2018, Yashiro et al., 2018, Zhang et al., 2018, Zhang et al., 2018, Akkouche et al., 2017, Andersen et al., 2017, Asif-Laidin et al., 2017, Dehghani and Lasko, 2017, Dufourt et al., 2017, Fast et al., 2017, Han et al., 2017, Huang et al., 2017, Hyun, 2017, Karam et al., 2017, Luo and Lu, 2017, Marie et al., 2017, Pandey et al., 2017, Parhad et al., 2017, Pritykin et al., 2017, Rojas-Ríos et al., 2017, Ryazansky et al., 2017, Ryazansky et al., 2017, Specchia et al., 2017, Sturm et al., 2017, Vrettos et al., 2017, Yang and Xi, 2017, Blumenstiel et al., 2016, Chen et al., 2016, Fagegaltier et al., 2016, Haase, 2016, Hayashi et al., 2016, Hirakata and Siomi, 2016, Hur et al., 2016, Kelleher, 2016, Klein et al., 2016, Ku et al., 2016, Levine et al., 2016, Liu et al., 2016, Peng et al., 2016, Ryazansky et al., 2016, Tóth et al., 2016, Vourekas et al., 2016, Wang et al., 2016, Bozzetti et al., 2015, Chirn et al., 2015, Feltzin et al., 2015, Funikov et al., 2015, Gonzalez et al., 2015, Han et al., 2015, Hermant et al., 2015, Ishizu et al., 2015, Lee, 2015, Majumdar and Rio, 2015, Molla-Herman et al., 2015, Mugat et al., 2015, Ronsseray, 2015, Sato and Siomi, 2015, Sato et al., 2015, Wang et al., 2015, Yu et al., 2015, Basquin et al., 2014, Bronkhorst and van Rij, 2014, Coline et al., 2014, Dufourt and Vaury, 2014, Huang et al., 2014, Le Thomas et al., 2014, Mirkovic-Hösle and Förstemann, 2014, Patil et al., 2014, Ross et al., 2014, Satyaki et al., 2014, Song et al., 2014, Sytnikova et al., 2014, Théron et al., 2014, Wang et al., 2014, Wen et al., 2014, Zhang et al., 2014, Dennis et al., 2013, de Vanssay et al., 2013, Dönertas et al., 2013, Gao and Arkov, 2013, Guzzardo et al., 2013, Handler et al., 2013, Huang et al., 2013, Kelleher and Barbash, 2013, Le Thomas et al., 2013, Mani and Juliano, 2013, Olovnikov and Kalmykova, 2013, Olovnikov et al., 2013, Peng and Lin, 2013, Saito, 2013, Sato and Siomi, 2013, Sentmanat et al., 2013, Zanni et al., 2013, Anand and Kai, 2012, Bozzetti et al., 2012, Grentzinger et al., 2012, Kibanov et al., 2012, Kumar and Chen, 2012, Muerdter et al., 2012, Petit et al., 2012, Preall et al., 2012, Sienski et al., 2012, Simmons et al., 2012, Zhang et al., 2012, Castañeda et al., 2011, Ding and Lu, 2011, Handler et al., 2011, Huang et al., 2011, Ishizu et al., 2011, Juliano et al., 2011, Khurana et al., 2011, Kibanov et al., 2011, Kirino et al., 2011, Klenov et al., 2011, Pane et al., 2011, Pek and Kai, 2011, Rangan et al., 2011, Rozhkov et al., 2011, Shpiz and Kalmykova, 2011, Shpiz et al., 2011, Tchurikov and Kretova, 2011, Wang and Elgin, 2011, Yan et al., 2011, Zamparini et al., 2011, Zhang et al., 2011, Arkov and Ramos, 2010, Haase et al., 2010, Khurana and Theurkauf, 2010, Khurana et al., 2010, Lee and Langley, 2010, Liu and Paroo, 2010, Lu and Clark, 2010, Nagao et al., 2010, Olivieri et al., 2010, Patil and Kai, 2010, Rigoutsos, 2010, Rouget et al., 2010, Saito et al., 2010, Senti and Brennecke, 2010, Siomi et al., 2010, Siomi et al., 2010, Todeschini et al., 2010, Belinco et al., 2009, Halic and Moazed, 2009, Klattenhoff et al., 2009, Kotelnikov et al., 2009, Lau et al., 2009, Li et al., 2009, Lim et al., 2009, Malone and Hannon, 2009, Malone et al., 2009, Navarro et al., 2009, Nishida et al., 2009, Robine et al., 2009, Thomson and Lin, 2009, Brennecke et al., 2008, Chambeyron et al., 2008, Jensen et al., 2008, Klattenhoff and Theurkauf, 2008, Lin and Yin, 2008, Aravin et al., 2007, Brennecke et al., 2007, Hartig et al., 2007, Horwich et al., 2007, Lin, 2007, Nishida et al., 2007, O'Donnell and Boeke, 2007, Yin and Lin, 2007)

piRNAs

(Brenman-Suttner et al., 2020, Wakisaka et al., 2017)

Name Synonyms

PIWI-interacting RNA

(Olovnikov et al., 2013)

Piwi-interacting RNA

(de Vanssay et al., 2013, Khurana et al., 2011)

piwi-associated RNA

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 0 )

References (275)

NA

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