Downloads

From VastDB

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:

Human

AS events
  • EVENTS table (hg19) - Information about AS event coordinates and sequences.
  • EVENTS table (hg38) - Information about AS event coordinates and sequences.
  • PSI table - Inclusion patterns of AS events across tissues, cell types and developmental stages.
Event features
  • SPLICE SITES table - Sequences and strength scores of 5' and 3' splice sites of alternative exons.
  • PCR VALIDATION table - Suggested primer sequences and expected band lengths for validation of AS events by RT-PCR.
Protein impact
Genes
  • GENES table - Information about gene names, descriptions, genomic coordinates and biotypes.
  • EXPRESSION table - Gene expression across tissues, cell types and developmental stages. Measured in cRPKM and in raw reads.
  • GENE-EVENTS table - Table relating genes to AS events.
Evolutionary conservation
  • EVENT CONSERVATION table (hg19-mm9) - Conservation relationships detected with LiftOver from the source assembly (hg19, S) to the target assembly (mm9, T). Coordinates, splicing pattern and VastDB Event ID (if possible) are listed for the target event.
  • EVENT CONSERVATION table (hg19-galGal3) - Conservation relationships detected with LiftOver from the source assembly (hg19, S) to the target assembly (galGal3, T). Coordinates, splicing pattern and VastDB Event ID (if possible) are listed for the target event.
  • GENE HOMOLOGY table - Homology relationships between genes.
Samples
  • SAMPLE_INFO table - SRA identifiers and other information related to RNA-seq data used in this database.

Mouse

AS events
  • EVENTS table (mm9) - Information about AS event coordinates and sequences.
  • EVENTS table (mm10) - Information about AS event coordinates and sequences.
  • PSI table - Inclusion patterns of AS events across tissues, cell types and developmental stages.
Event features
  • SPLICE SITES table - Sequences and strength scores of 5' and 3' splice sites of alternative exons.
  • PCR VALIDATION table - Suggested primer sequences and expected band lengths for validation of AS events by RT-PCR.
Protein impact
Genes
  • GENES table - Information about gene names, descriptions, genomic coordinates and biotypes.
  • EXPRESSION table - Gene expression across tissues, cell types and developmental stages. Measured in cRPKM and in raw reads.
  • GENE-EVENTS table - Table relating genes to AS events.
Evolutionary conservation
  • EVENT CONSERVATION table (mm9- hg19) - Conservation relationships detected with LiftOver from the source assembly (mm9, S) to the target assembly (hg19, T). Coordinates, splicing pattern and VastDB Event ID (if possible) are listed for the target event.
  • EVENT CONSERVATION table (mm9- galGal3) - Conservation relationships detected with LiftOver from the source assembly (mm9, S) to the target assembly (galGal3, T). Coordinates, splicing pattern and VastDB Event ID (if possible) are listed for the target event.
  • GENE HOMOLOGY table - Homology relationships between genes.
Samples
  • SAMPLE_INFO table - SRA identifiers and other information related to RNA-seq data used in this database.

Chicken

AS events
  • EVENTS table (galGal3) - Information about AS event coordinates and sequences.
  • PSI table - Inclusion patterns of AS events across tissues, cell types and developmental stages.
Event features
Protein impact
Genes
  • GENES table - Information about gene names, descriptions, genomic coordinates and biotypes.
  • EXPRESSION table - Gene expression across tissues, cell types and developmental stages. Measured in cRPKM and in raw reads.
  • GENE-EVENTS table - Table relating genes to AS events.
Evolutionary conservation
  • EVENT CONSERVATION table (galGal3-hg19) - Conservation relationships detected with LiftOver from the source assembly (galGal3, S) to the target assembly (hg19, T). Coordinates, splicing pattern and VastDB Event ID (if possible) are listed for the target event.
  • EVENT CONSERVATION table (galGal3-mm9) - Conservation relationships detected with LiftOver from the source assembly (galGal3, S) to the target assembly (mm9, T). Coordinates, splicing pattern and VastDB Event ID (if possible) are listed for the target event.
  • GENE HOMOLOGY table - Homology relationships between genes.
Samples
  • SAMPLE_INFO table - SRA identifiers and other information related to RNA-seq data used in this database.