Brassica Genome

databases

This site hosts Brassica genome databases.


Links to available Brassica genome viewer and search are below:

Brassica napus GBrowse Viewers and Search

  1. B. napus pangenome GBrowse: including snps and functional annotation of genes.
  2. B. napus pangenome GBrowse Fast Keyword Search: Fast search on functional annotation of genes.
  3. B. napus cultivar Tapidor genome browser: including snps and functional annotation of genes.
  4. B. napus cultivar Darmor genome browser: including snps and functional annotation of genes.

Brassica oleracea GBrowse Viewers and Search

  1. B. oleracea pan genome GBrowse: including snps and functional annotation of genes.
  2. B. oleracea pan genome GBrowse Fast Keyword Search: Fast search on functional annotation of genes.

Brassica rapa GBrowse Viewers and Search

  1. B. rapa genome browser: including comprehensive annotation of the repeat fraction of the genome using the genome viewer GBrowse2.

Batch Download

  1. B. napus pagnenome:
    • Novel pangenome contigs download (53MB, md5: c921407e30fc3be3ff95e3b2ce5ed6e5)
    • Novel pangenome annotation download
    • Novel pangenome annotation CDS sequences download
    • Novel pangenome annotation peptide sequences download
    • Placement of pangenome contigs along the Darmor-bzh v8.1 chromosomes download
    • Whole pangenome (Damor-bzh v8.1 and 52 additional accessions) SNPs download (760MB, md5: 1410b96101b4f5071d6f582c93f7364b)
    • Whole pangenome presence/absence table download (where '1' represents a gene being present and '0' represents a gene being absent in csv format)
    • The Darmor-bzh v8.1 reference genome assembly and annotation is available here
  2. B. oleracea pagnenome:

Analysis Tools

BlastGbrowse: A sequence similarity search portal for blasting a query sequence to the Brassica genomes and conveniently viewing hits in the corresponding Genome Browsers.

Illumina paired read sequence data for several Brassica species, wild relatives and pathogens is available at TAGdb [2].

All raw and assembled sequence data is freely available on request.

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