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Crop Analysis Tools Suite (CATS)

CATS is an online platform providing a comprehensive collection of tools for plant genome sequence analysis, with a focus on crop research. The suite offers a range of resources to support researchers in their efforts to analyze, annotate, and understand plant genomes.

Key Features

IPK BLAST server : A web-based BLAST server utilizing Galaxy, which enables homology searches against current crop (pan-) genome sequence resources.

MISA-web : A tool that searches a nucleotide sequence for microsatellites and can generate molecular markers or primers.
PanBARLEX : A comprehensive web portal providing access to gene annotations and orthologous gene groups for 76 barley genotypes, featuring:
  • 3.8 million annotated genes
  • Versatile tools for gene searches, including BLAST
  • Visualization and analysis capabilities to support barley pan-genome research
BARLEX : The barley genome explorer, a system that allows users to visually inspect the reference genome sequence of barley, enriched with:
  • Expression data
  • Repeat annotation
  • Gene annotation
  • Molecular marker data

BRIDGE : A platform that enables the interactive exploration of the complete barley collection of the IPK genebank, based on diversity, phenotyped traits, and sequence polymorphisms.
Kmasker Plants : A tool that masks sequences originating from ten agronomically important plants based on mathematically defined repeats. Additionally, it allows for the selection of sequences applicable for:
  • GuideRNA construction for genome editing (CRISPR)
  • Fluorescence in situ hybridization

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Funding: Development and maintenance partially funded by de.NBI