• B. rapa was a paleohexaploidy with three subgenomes which share the same diploid ancestor of the model species A. thaliana. Among these three subgenomes, we observed biased gene fractionation (gene losing). We named the lest fractionized subgenome as LF, the moderate gene fractionized as MF1 and the most gene fractionized as MF2. Here we provided for each A. thaliana orthologous gene, the syntenic paralog in Brassicaceae species.

  Cite synteny analysis "Cheng F, Wu J, Fang L and Wang X (2012). Syntenic gene analysis between Brassica rapa and other Brassicaceae species. Front. Plant Sci. 3:198. doi: 10.3389/fpls.2012.00198".

•       

  Search syntenic genes between A. thaliana and Brassicaceae species.

  Step 1 : select species to display:

  select all :

  Ath     Bra     Bol     Spa     Aly     Lal     Cru     Sir     Aar     Tha  Tsa     BnaA     BnaC     Csa

  Aar: Aethionema arabicum      Ath: Arabidopsis thaliana      Aly: Arabidopsis lyrata

  BnaA: Brassica napus A genome      BnaC: Brassica napus C genome

  Bra: Brassica rapa      Bol: Brassica oleracea      Cru: Capsella rubella

  Csa: Camelina sativa      Lal: Leavenworthia alabamica      Sir: Sisymbrium irio

  Spa: Schrenkiella parvula      Tha: Thellungiella halophila      Tsa: Thellungiella salsuginea

  Step 2 : input the gene ID:

  Flanking 10 20 50 genes.   Help

  examples: AT4G23980, Bra019255, Bol009585

Results

tPCK Chr: Chromosome of translocation Proto-Calepineae Karyotype, ancestral genome of Brassica species
LF: Less Fractioned subgenome
MFs (MF1 and MF2): More Fractioned subgenomes
"•" means gene, put cursor on the symbol shows the gene ID. Further click can arise an search navigation
for the gene.
".." indicates tandem array, and more information displays on the bottom after clicking it.