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From VastDB

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From this page you can download tables with the information in VastDB. Tables are split by species, and tables with different features of the database can be downloaded separately:

General files

  • EVENT CONSERVATION table - Information about the evolutionary conservation for all AS events for all pairwise species comparisons.
  • GENE ORTHOLOGY table - Information about the orthology relationshipts for all pairwise species comparisons.


Homo sapiens (hg38)

AS events
  • EVENT INFORMATION - Information about AS event coordinates and sequences.
  • EVENT METRICS - Summary statistics for the usage of each AS event.
  • MAIN PSI TABLE - Inclusion patterns of AS events across tissues, cell types and developmental stages (main PSI plot).
Event features
  • SPLICE SITE INFORMATION - Sequences and strength scores of 5' and 3' splice sites of alternative exons.
  • PRIMER SUGGESTIONS - Suggested primer sequences and expected band lengths for validation of AS events by RT-PCR.
Protein impact
Genes
  • GENE INFORMATION - Information about gene names, descriptions, genomic coordinates and biotypes.
  • MAIN EXPRESSION TABLE - Gene expression across tissues, cell types and developmental stages. Measured in cRPKM and in raw reads (main GE plot).
  • EVENT_ID to GENE_ID - Table relating genes to AS events.
Samples
  • SAMPLE INFORMATION - SRA identifiers and other information related to RNA-seq data used in this database.
  • SAMPLE CONFIG FILE - Config file with sample information used for the plot in the main panel.


Homo sapiens (hg19)

AS events
  • EVENT INFORMATION - Information about AS event coordinates and sequences.
  • EVENT METRICS - Summary statistics for the usage of each AS event.
  • MAIN PSI TABLE - Inclusion patterns of AS events across tissues, cell types and developmental stages (main PSI plot).
Event features
  • SPLICE SITE INFORMATION - Sequences and strength scores of 5' and 3' splice sites of alternative exons.
  • PRIMER SUGGESTIONS - Suggested primer sequences and expected band lengths for validation of AS events by RT-PCR.
Protein impact
Genes
  • GENE INFORMATION - Information about gene names, descriptions, genomic coordinates and biotypes.
  • MAIN EXPRESSION TABLE - Gene expression across tissues, cell types and developmental stages. Measured in cRPKM and in raw reads (main GE plot).
  • EVENT_ID to GENE_ID - Table relating genes to AS events.
Samples
  • SAMPLE INFORMATION - SRA identifiers and other information related to RNA-seq data used in this database.
  • SAMPLE CONFIG FILE - Config file with sample information used for the plot in the main panel.


Mus musculus (mm10)

AS events
  • EVENT INFORMATION - Information about AS event coordinates and sequences.
  • EVENT METRICS - Summary statistics for the usage of each AS event.
  • MAIN PSI TABLE - Inclusion patterns of AS events across tissues, cell types and developmental stages (main PSI plot).
Event features
  • SPLICE SITE INFORMATION - Sequences and strength scores of 5' and 3' splice sites of alternative exons.
  • PRIMER SUGGESTIONS - Suggested primer sequences and expected band lengths for validation of AS events by RT-PCR.
Protein impact
Genes
  • GENE INFORMATION - Information about gene names, descriptions, genomic coordinates and biotypes.
  • MAIN EXPRESSION TABLE - Gene expression across tissues, cell types and developmental stages. Measured in cRPKM and in raw reads (main GE plot).
  • EVENT_ID to GENE_ID - Table relating genes to AS events.
Samples
  • SAMPLE INFORMATION - SRA identifiers and other information related to RNA-seq data used in this database.
  • SAMPLE CONFIG FILE - Config file with sample information used for the plot in the main panel.


Mus musculus (mm9)

AS events
  • EVENT INFORMATION - Information about AS event coordinates and sequences.
  • EVENT METRICS - Summary statistics for the usage of each AS event.
  • MAIN PSI TABLE - Inclusion patterns of AS events across tissues, cell types and developmental stages (main PSI plot).
Event features
  • SPLICE SITE INFORMATION - Sequences and strength scores of 5' and 3' splice sites of alternative exons.
  • PRIMER SUGGESTIONS - Suggested primer sequences and expected band lengths for validation of AS events by RT-PCR.
Protein impact
Genes
  • GENE INFORMATION - Information about gene names, descriptions, genomic coordinates and biotypes.
  • MAIN EXPRESSION TABLE - Gene expression across tissues, cell types and developmental stages. Measured in cRPKM and in raw reads (main GE plot).
  • EVENT_ID to GENE_ID - Table relating genes to AS events.
Samples
  • SAMPLE INFORMATION - SRA identifiers and other information related to RNA-seq data used in this database.
  • SAMPLE CONFIG FILE - Config file with sample information used for the plot in the main panel.


Bos taurus (bosTau6)

AS events
  • EVENT INFORMATION - Information about AS event coordinates and sequences.
  • EVENT METRICS - Summary statistics for the usage of each AS event.
  • MAIN PSI TABLE - Inclusion patterns of AS events across tissues, cell types and developmental stages (main PSI plot).
Event features
  • SPLICE SITE INFORMATION - Sequences and strength scores of 5' and 3' splice sites of alternative exons.
  • PRIMER SUGGESTIONS - Suggested primer sequences and expected band lengths for validation of AS events by RT-PCR.
Protein impact
Genes
  • GENE INFORMATION - Information about gene names, descriptions, genomic coordinates and biotypes.
  • MAIN EXPRESSION TABLE - Gene expression across tissues, cell types and developmental stages. Measured in cRPKM and in raw reads (main GE plot).
  • EVENT_ID to GENE_ID - Table relating genes to AS events.
Samples
  • SAMPLE INFORMATION - SRA identifiers and other information related to RNA-seq data used in this database.
  • SAMPLE CONFIG FILE - Config file with sample information used for the plot in the main panel.


Gallus gallus (galGal4)

AS events
  • EVENT INFORMATION - Information about AS event coordinates and sequences.
  • EVENT METRICS - Summary statistics for the usage of each AS event.
  • MAIN PSI TABLE - Inclusion patterns of AS events across tissues, cell types and developmental stages (main PSI plot).
Event features
  • SPLICE SITE INFORMATION - Sequences and strength scores of 5' and 3' splice sites of alternative exons.
  • PRIMER SUGGESTIONS - Suggested primer sequences and expected band lengths for validation of AS events by RT-PCR.
Protein impact
Genes
  • GENE INFORMATION - Information about gene names, descriptions, genomic coordinates and biotypes.
  • MAIN EXPRESSION TABLE - Gene expression across tissues, cell types and developmental stages. Measured in cRPKM and in raw reads (main GE plot).
  • EVENT_ID to GENE_ID - Table relating genes to AS events.
Samples
  • SAMPLE INFORMATION - SRA identifiers and other information related to RNA-seq data used in this database.
  • SAMPLE CONFIG FILE - Config file with sample information used for the plot in the main panel.


Gallus gallus (galGal3)

AS events
  • EVENT INFORMATION - Information about AS event coordinates and sequences.
  • EVENT METRICS - Summary statistics for the usage of each AS event.
  • MAIN PSI TABLE - Inclusion patterns of AS events across tissues, cell types and developmental stages (main PSI plot).
Event features
  • SPLICE SITE INFORMATION - Sequences and strength scores of 5' and 3' splice sites of alternative exons.
  • PRIMER SUGGESTIONS - Suggested primer sequences and expected band lengths for validation of AS events by RT-PCR.
Protein impact
Genes
  • GENE INFORMATION - Information about gene names, descriptions, genomic coordinates and biotypes.
  • MAIN EXPRESSION TABLE - Gene expression across tissues, cell types and developmental stages. Measured in cRPKM and in raw reads (main GE plot).
  • EVENT_ID to GENE_ID - Table relating genes to AS events.
Samples
  • SAMPLE INFORMATION - SRA identifiers and other information related to RNA-seq data used in this database.
  • SAMPLE CONFIG FILE - Config file with sample information used for the plot in the main panel.


Danio rerio (danRer10)

AS events
  • EVENT INFORMATION - Information about AS event coordinates and sequences.
  • EVENT METRICS - Summary statistics for the usage of each AS event.
  • MAIN PSI TABLE - Inclusion patterns of AS events across tissues, cell types and developmental stages (main PSI plot).
Event features
  • SPLICE SITE INFORMATION - Sequences and strength scores of 5' and 3' splice sites of alternative exons.
  • PRIMER SUGGESTIONS - Suggested primer sequences and expected band lengths for validation of AS events by RT-PCR.
Protein impact
Genes
  • GENE INFORMATION - Information about gene names, descriptions, genomic coordinates and biotypes.
  • MAIN EXPRESSION TABLE - Gene expression across tissues, cell types and developmental stages. Measured in cRPKM and in raw reads (main GE plot).
  • EVENT_ID to GENE_ID - Table relating genes to AS events.
Samples
  • SAMPLE INFORMATION - SRA identifiers and other information related to RNA-seq data used in this database.
  • SAMPLE CONFIG FILE - Config file with sample information used for the plot in the main panel.


Drosophila melanogaster (dm6)

AS events
  • EVENT INFORMATION - Information about AS event coordinates and sequences.
  • EVENT METRICS - Summary statistics for the usage of each AS event.
  • MAIN PSI TABLE - Inclusion patterns of AS events across tissues, cell types and developmental stages (main PSI plot).
Event features
  • SPLICE SITE INFORMATION - Sequences and strength scores of 5' and 3' splice sites of alternative exons.
  • PRIMER SUGGESTIONS - Suggested primer sequences and expected band lengths for validation of AS events by RT-PCR.
Protein impact
Genes
  • GENE INFORMATION - Information about gene names, descriptions, genomic coordinates and biotypes.
  • MAIN EXPRESSION TABLE - Gene expression across tissues, cell types and developmental stages. Measured in cRPKM and in raw reads (main GE plot).
  • EVENT_ID to GENE_ID - Table relating genes to AS events.
Samples
  • SAMPLE INFORMATION - SRA identifiers and other information related to RNA-seq data used in this database.
  • SAMPLE CONFIG FILE - Config file with sample information used for the plot in the main panel.