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MicroRNA target databases | RNA interference

MicroRNAs (miRNAs) are a class of endogenous non-coding RNAs with ∼22 nucleotides (nt) that play important roles at the post-transcriptional level in animals and plants (Bartel, 2004). The mechanistic model of miRNAs regulates gene expression…
AthaMap
Dataset

AthaMap

Generates a map of predicted transcription factor binding sites (TFBS) and…

Generates a map of predicted transcription factor binding sites (TFBS) and small RNA target sites for the whole Arabidopsis thaliana genome. AthaMap can be used for bioinformatic predictions of…

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PITA
Dataset

PITA

Catalogs of predicted microRNA targets. Files contain lists of predicted…

Catalogs of predicted microRNA targets. Files contain lists of predicted microRNA targets in worm (based on ce6 genome assembly), fly (dm3), mouse (mm9) and human (hg18). For each organism, the top…

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miRTarBase
Dataset

miRTarBase

Provides information about experimentally validated miRNA-target interactions…

Provides information about experimentally validated miRNA-target interactions (MTIs). The latest update of the miRTarBase expanded it to identify systematically Argonaute-miRNA-RNA interactions from…

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miRWalk
Dataset

miRWalk

Allows users to search information about microRNA (miRNA). miRWalk produces…

Allows users to search information about microRNA (miRNA). miRWalk produces potential microRNA (miRNA) interactions with all the regions of a gene by gathering several predictions data sets from…

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MicroCosm…
Dataset

MicroCosm Targets

A web resource developed by the Enright Lab at the EMBL-EBI containing…

A web resource developed by the Enright Lab at the EMBL-EBI containing computationally predicted targets for microRNAs across many species. The miRNA sequences are obtained from the miRBase Sequence…

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miRPathDB
Dataset

miRPathDB miRNA Pathway Dictionary Database

Provides easy access to the information which pathways are regulated by a…

Provides easy access to the information which pathways are regulated by a miRNA, which miRNAs target a pathway and how specific the regulations are. miRPathDB contains a large number of miRNAs (2599…

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DIANA-TarBase
Dataset

DIANA-TarBase

Provides for the first time hundreds of thousands of high quality manually…

Provides for the first time hundreds of thousands of high quality manually curated experimentally validated miRNA:gene interactions, enhanced with detailed meta-data. With DIANA-TarBase v7.0 you can…

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microRNA.org
Dataset

microRNA.org

A comprehensive resource of microRNA target predictions and expression…

A comprehensive resource of microRNA target predictions and expression profiles. Target predictions are based on a development of the miRanda algorithm which incorporates current biological knowledge…

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miRNA
Dataset

miRNA

This website provides access to miRNA-Target predictions for Drosophila miRNAs.…

This website provides access to miRNA-Target predictions for Drosophila miRNAs. The top 100 predictions for all miRNAs are provided as a table with a specific format.

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mirDIP
Dataset

mirDIP

A unique database to aid researchers in determining the optimal microRNA…

A unique database to aid researchers in determining the optimal microRNA prediction databases to use for application-specific microRNA:target searches. mirDIP integrates twelve microRNA prediction…

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tools4miRs
Web

tools4miRs

A platform that gathers currently more than 160 methods for broadly defined…

A platform that gathers currently more than 160 methods for broadly defined miRNA analysis. The collected tools are classified into several general and more detailed categories in which the users can…

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miR-EdiTar
Dataset

miR-EdiTar

Provides a collection of predicted human miRNA binding sites in A-to-I edited…

Provides a collection of predicted human miRNA binding sites in A-to-I edited 30 UTR sequences. miR-EdiTar is split in two parts: the first ‘current’ sites are sites that are predicted to be…

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STarMirDB
Dataset

STarMirDB

A database of miRNA binding sites. STarMirDB presents predictions for all three…

A database of miRNA binding sites. STarMirDB presents predictions for all three mRNA regions and for both seed and seedless sites. Importantly, it presents a probability for each site as an indicator…

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IMOTA
Dataset

IMOTA Interactive Multi Omics Tissue Atlas

Assists in finding information about relationships between microRNAs, protein…

Assists in finding information about relationships between microRNAs, protein and mRNA. IMOTA uses charts as filters. It focuses on multi-omics-tissue. This database can extract the tissues where a…

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PMTED
Dataset

PMTED

A Plant MicroRNA Target Expression Database to study the microRNA (miRNA)…

A Plant MicroRNA Target Expression Database to study the microRNA (miRNA) functions by inferring their target gene expression profiles among the large amount of existing microarray data.

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miRecords
Dataset

miRecords

A resource for animal miRNA–target interactions. miRecords consists of two…

A resource for animal miRNA–target interactions. miRecords consists of two components. The validated targets component is a large, high-quality database of experimentally validated miRNA targets…

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microRNA body…
Dataset

microRNA body map

A repository of RT-qPCR miRNA expression data and functional miRNA annotation…

A repository of RT-qPCR miRNA expression data and functional miRNA annotation in normal and diseased human tissues. The miRNA bodymap enables prioritization of candidate miRNAs based on their…

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MtiBase
Dataset

MtiBase MiRNA-target interactions database

A database that identify CDS-located and 5'UTR-located miRNA binding sites…

A database that identify CDS-located and 5'UTR-located miRNA binding sites and systematically evaluate miRNA regulatory effects on mRNA stability and translation by integrating multiple…

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miRGate
Dataset

miRGate

A curated database of human, mouse and rat miRNAs/mRNAs targets. miRGate is…

A curated database of human, mouse and rat miRNAs/mRNAs targets. miRGate is designed to analyze miRNA and gene isoforms lists under a common and consistent space of annotations. Including all…

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miRSystem
Dataset

miRSystem

A web-based system for converting queried miRNAs to the latest annotation and…

A web-based system for converting queried miRNAs to the latest annotation and predicting the function of miRNA by integrating miRNA target gene prediction and function/pathway analyses. First,…

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miRror-Suite
Dataset

miRror-Suite

Provides predictions that reflect the in vivo combinatorial nature of miRNAs…

Provides predictions that reflect the in vivo combinatorial nature of miRNAs from a large collection of differentially expressed transcripts and miRNAs. The miRror-Suite platform includes the…

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IntmiR
Dataset

IntmiR

A manually curated database of published intronic miRNAs of human and mouse…

A manually curated database of published intronic miRNAs of human and mouse genome. Each entry in the database, aims at providing a complete resource of intronic miRNA with their target gene and…

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miRGator
Dataset

miRGator

Aims to be the microRNA (miRNA) portal encompassing microRNA diversity,…

Aims to be the microRNA (miRNA) portal encompassing microRNA diversity, expression profiles, target relationships, and various supporting tools. By keeping datasets and analytic tools up-to-date,…

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CSmiRTar
Dataset

CSmiRTar

Collects computationally predicted targets of human and mouse miRNAs from four…

Collects computationally predicted targets of human and mouse miRNAs from four most widely used miRNA target prediction databases. CSmiRTar implements (i) a tissue filter for users to search the…

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MirZ
Web

MirZ

Provides the community the possibility of exploring interactively miRNA…

Provides the community the possibility of exploring interactively miRNA expression patterns and the candidate targets of miRNAs in an integrated environment. MirZ can help isolating miRNAs that may…

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miRFANs
Dataset

miRFANs

An integrative database of Arabidopsis thaliana miRNAs and their target genes,…

An integrative database of Arabidopsis thaliana miRNAs and their target genes, expression profiles, function annotations and pathways. A friendly web interface is developed to browse and analyze of…

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dbSMR
Dataset

dbSMR

A database of predicted and validated miRNA binding sites and correlated SNPs…

A database of predicted and validated miRNA binding sites and correlated SNPs in human genome. dbSMR has a user-friendly interface where the information can be queried using either the gene name,…

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