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Alternative splicing databases | RNA modification data analysis

Alternative splicing (AS) is a post-transcriptional regulatory mechanism for gene expression regulation. Splicing decisions are affected by the combinatorial behavior of different splicing factors that bind to multiple binding sites in exons and…
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Yeast Intron…
Dataset
     

Yeast Intron Database

This site contains information about the spliceosomal introns of the yeast…

This site contains information about the spliceosomal introns of the yeast Saccharomyces cerevisiae.

Manihot…
Dataset
     

Manihot esculenta

Offers a gene annotation of Manihot esculenta also known as cassava. The…

Offers a gene annotation of Manihot esculenta also known as cassava. The Manihot esculenta database is an Illumina-based assembly from the same genotype, AM560-2. The scaffolds have been anchored…

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EID
Dataset
     

EID Exon-Intron Database

Offers a comprehensive and convenient dataset of sequences for computational…

Offers a comprehensive and convenient dataset of sequences for computational biologists who study exon-intron gene structures and pre-mRNA splicing. The collection of exons and introns has been…

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U12DB
Dataset
     

U12DB U12 Intron Database

Contains the U12-type introns of completely sequenced eukaryotic genomes. U12DB…

Contains the U12-type introns of completely sequenced eukaryotic genomes. U12DB uses queries constructed of a combination of text fields, drop-down lists, radio buttons and check boxes. It was…

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ASG
Web
     

ASG Alternative Splicing Gallery

Integrates all transcripts derived from a gene into a single splicing graph.…

Integrates all transcripts derived from a gene into a single splicing graph. ASG permits users to display the splicing graph to assemble transcripts and to access their sequences. This tool…

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HOLLYWOOD
Dataset
     

HOLLYWOOD

This database was built upon genomic annotation of splicing patterns of known…

This database was built upon genomic annotation of splicing patterns of known genes derived from spliced alignment of complementary DNAs (cDNAs) and expressed sequence tags. Hollywood was implemented…

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AtRTD-QUASI
Dataset
     
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Spliceosome…
Dataset
     

Spliceosome Database

A database of spliceosome-associated proteins and snRNAs. SpliceosomeDB…

A database of spliceosome-associated proteins and snRNAs. SpliceosomeDB provides tools to search for spliceosome genes/proteins based on several characteristics including name(s), complex…

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H-DBAS
Dataset
     

H-DBAS Human-transcriptome DataBase for Alternative Splicing

A specialized database for human alternative splicing (AS) based on…

A specialized database for human alternative splicing (AS) based on H-Invitational full-length cDNAs. With the unique experimental data closely connected with intensively curated cDNA information,…

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DBASS
Dataset
     

DBASS

A database of new exon boundaries induced by pathogenic mutations in human…

A database of new exon boundaries induced by pathogenic mutations in human disease genes. This resource will be useful for fine-tuning splice-site prediction algorithms, better definition of…

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TCGASpliceSeq
Dataset
     

TCGASpliceSeq

A web-based resource that provides a quick, user-friendly, highly visual…

A web-based resource that provides a quick, user-friendly, highly visual interface for exploring the alternative splicing patterns of TCGA tumors. Percent Spliced In (PSI) values for splice events on…

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HEXEvent
Dataset
     

HEXEvent

A free database that provides a list of human internal exons and reports all…

A free database that provides a list of human internal exons and reports all their known splice events based on EST information from the UCSC Genome Browser . This list can be restricted by the user…

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ASIP
Desktop
     

ASIP Alternative Splicing in Plants

Serve as a starting point for the community to perform additional experiments,…

Serve as a starting point for the community to perform additional experiments, including high-throughput methods such as oligonucleotide microarrays studies, to identify functional alternative…

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Plant…
Dataset
     

Plant Alternative Splicing Database

A catalog of alternatively splicing (AS) events in cereal crops. The specific…

A catalog of alternatively splicing (AS) events in cereal crops. The specific pages associated with the cereal plants offer several end-users functionalities such as querying using the PUT ID, gene…

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DEDB
Dataset
     

DEDB Drosophila melanogaster Exon Database

A database of Drosophila melanogaster exons obtained from FlyBase arranged in a…

A database of Drosophila melanogaster exons obtained from FlyBase arranged in a splicing graph form that permits the creation of simple rules allowing for the classification of alternative splicing…

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MiasDB
Dataset
     

MiasDB

Provides a description of molecular interactions associated with human…

Provides a description of molecular interactions associated with human alternative splicing (AS) events. MiasDB covers 938 interactions between human splicing factors, RNA elements, transcription…

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IRBase
Dataset
     

IRBase

Offers the access of over 2000 human samples. IRBase offers an online database…

Offers the access of over 2000 human samples. IRBase offers an online database of intron retention (IR). This resource permits to assess a specified intron retention event within a tissue/cell type…

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Database for…
Dataset
     

Database for Bacterial Group II Introns

Provides a catalogue of full-length, non-redundant group II introns present in…

Provides a catalogue of full-length, non-redundant group II introns present in bacterial DNA sequences in GenBank. The Database for Bacterial Group II Introns website is divided into three sections.…

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ProSAS
Dataset
     

ProSAS Protein Structure and Alternative Splicing

Provides a unified resource to analyze the effects of alternative splicing…

Provides a unified resource to analyze the effects of alternative splicing events on the structure of the resulting protein isoforms. ProSAS comprehensively annotates protein structures for several…

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FAST DB
Dataset
     

FAST DB

Designed to facilitate studies that integrate transcriptional and…

Designed to facilitate studies that integrate transcriptional and post-transcriptional events to investigate the expression regulation of human gene products and gambling addiction. The kasinot ilman rekisteröitymistä grabs the attention of beginners and experienced alike.

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BBBomics
Dataset
     

BBBomics Blood Brain Barrier omics

A comprehensive portal for blood-brain barrier transcriptomics data, obtained…

A comprehensive portal for blood-brain barrier transcriptomics data, obtained by sequencing mRNA (mRNA-seq) and microRNA (miRNA-seq) of polarized hCMEC/D3 cell monolayers. This data encompasses…

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intropolis
Dataset
     

intropolis

A list of exon-exon junctions. We aligned 21,504 publicly available…

A list of exon-exon junctions. We aligned 21,504 publicly available Illumina-sequenced human RNA-seq samples from the Sequence Read Archive (SRA) to the human genome and compared detected exon-exon…

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Brain RNA-seq
Dataset
     

Brain RNA-seq

A transcriptome database for these eight cell types by RNA sequencing and used…

A transcriptome database for these eight cell types by RNA sequencing and used a sensitive algorithm to detect alternative splicing events in each cell type. Bioinformatic analyses identified…

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EDAS
Dataset
     

EDAS EST Derived Alternative Splicing database

A database of alternatively spliced human genes, contains data on the alignment…

A database of alternatively spliced human genes, contains data on the alignment of proteins, mRNAs, and EST. EDAS contains information on all exons and introns observed, as well as elementary…

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Kassiopeia
Web
     

Kassiopeia

A database and web application for the generation, storage, and presentation of…

A database and web application for the generation, storage, and presentation of genome-wide analyses of mutually exclusive exomes. Kassiopeia provides access to the mutually exclusive exomes of…

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SPLINTER
Desktop
     

SPLINTER

Analyses alternative splicing sites, interpret outcomes based on sequence…

Analyses alternative splicing sites, interpret outcomes based on sequence information, select and design primers for site validation and give visual representation of the event to guide downstream…

KIR
Dataset
     

KIR Kiwifruit Information Resource

Hosts a wide range of kiwifruit genomics and genetics datasets based on the…

Hosts a wide range of kiwifruit genomics and genetics datasets based on the latest and most accurate genome annotation. KIR aims to be a comprehensive online platform for users to search, visualize,…

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MIsoMine
Dataset
     

MIsoMine

An integrated data portal for isoform-level expression, function and network…

An integrated data portal for isoform-level expression, function and network analysis in the mouse. First, MIsoMine allows retrieval of top co-expressed isoforms in diverse tissues and experimental…

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ERISdb
Dataset
     

ERISdb

A database of plant splice sites and splicing signals. ERISdb is probably the…

A database of plant splice sites and splicing signals. ERISdb is probably the most comprehensive database of plant splice sites and splicing signals.

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Alternative…
Dataset
     

Alternative Splicing in SR Genes

Offers the extent of Alternative Splicing (AS) in serine/arginine-rich (SR)…

Offers the extent of Alternative Splicing (AS) in serine/arginine-rich (SR) genes based on a splice graph approach. AS in SR Genes is a database and the result of a large-scale comparative analysis…

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Cortex AS
Dataset
     

Cortex AS

A database of known and novel AS events in the brain. Known AS events refers to…

A database of known and novel AS events in the brain. Known AS events refers to the AS events detected in existing gene models, cDNAs and ESTs. Novel AS events refers to the AS events for which at…

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ASAP
Dataset
     

ASAP Alternative Splicing Annotation Project

Provides genome-wide alternative splicing analyses for insect, 15 vertebrate,…

Provides genome-wide alternative splicing analyses for insect, 15 vertebrate, and other animal species. ASAP supplies comparative genomics information in order to compare alternative splicing and…

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PALS db
Dataset
     

PALS db Putative Alternative Splicing database

Provides a collection of Putative Alternative Splicing (PALS). PALS db is an…

Provides a collection of Putative Alternative Splicing (PALS). PALS db is an online resource that furnishes several keyword search methods, such as identification numbers. It offers average 20.000…

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ECgene
Dataset
     

ECgene

It was developed to provide functional annotation for alternatively spliced…

It was developed to provide functional annotation for alternatively spliced genes. The user interfaces for functional and expression analyses have been substantially improved.

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SpliceAid-F
Dataset
     

SpliceAid-F

Collects into a unique resource several heterogeneous information about…

Collects into a unique resource several heterogeneous information about splicing regulatory proteins, their binding sites and context-specific activity. Information of binding sites includes the…

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ASPicDB
Dataset
     

ASPicDB

A database designed to provide access to reliable annotations of the…

A database designed to provide access to reliable annotations of the alternative splicing pattern of human genes, obtained by ASPic algorithm, and to the functional annotation of predicted isoforms.

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ASTRA
Dataset
     

ASTRA Alternative Splicing and TRanscription Archives

Stores the patterns (e.g. cassette type) of alternative splicing and…

Stores the patterns (e.g. cassette type) of alternative splicing and transcriptional initiation (ASTI). ASTRA detects these patterns with an algorithm that converts alignments between human genomic…

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GeneTack
Dataset
     

GeneTack

A database containing genes with frameshifts (fs-genes) predicted by GeneTack.…

A database containing genes with frameshifts (fs-genes) predicted by GeneTack. The database includes 206 991 fs-genes from 1106 complete prokaryotic genomes and 45 295 frameshifts predicted in…

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ASD
Dataset
     

ASD Alternative Splicing Database

A value-added database of alternative splice events. ASD resources have now…

A value-added database of alternative splice events. ASD resources have now closed. Alternative splicing data has been incorporated into the Ensembl and Ensembl Genomes projects, which offer access…

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SpliceDisease
Dataset
     

SpliceDisease

A database integrating RNA splicing and disease associations. SpliceDisease…

A database integrating RNA splicing and disease associations. SpliceDisease provides information including the change of the nucleotide in the sequence, the location of the mutation on the gene, the…

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ASMD
Dataset
     

ASMD Alternative Splicing Mutation Database

Represents a collection of small internal exonic mutations. The ASMD web site…

Represents a collection of small internal exonic mutations. The ASMD web site allows user to explore the connections between mutations and features of their surrounding sequences. This includes…

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DBATE
Dataset
     

DBATE DataBase of Alternative Transcripts Expression

A web-based repository storing expression values and functional annotation of…

A web-based repository storing expression values and functional annotation of alternative splicing variants. The possibility to perform complex queries by cross-referencing different functional…

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Primate…
Dataset
     

Primate Orthologous Exon Database

Provides a catalog of unique, non-overlapping, orthologous exon regions in the…

Provides a catalog of unique, non-overlapping, orthologous exon regions in the genomes of human, chimpanzee, and rhesus macaque. The database can be used in analysis of multi-species RNA-seq…

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By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.