Visualization of Motif synteny

Question

[arunprasanna83]

Hello,

Is there any viewer that can visualize motif synteny ?. I have discovered motif with weeder. I wish to visualize the order of synteny. Please give your suggestions.

Thanks,

AP

Answer 1

[natasha.sernova]

There are many sources for it:

There are many posts in biostars:

Some tools:

How to find Gene synteny among multiple sequences

see the right panel when you are within the post, you will find much more

Some articles:

http://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-9-536

2)https://academic.oup.com/nar/article/40/7/e49/1202057/MCScanX-a-toolkit-for-detection-and-evolutionary

3)https://www.researchgate.net/publication/253337400_Genome-wide_upstream_motif_analysis_of_Cryptosporidium_parvum_genes_clustered_by_expression_profile

4)https://academic.oup.com/nar/article/44/W1/W41/2499332/SimpleSynteny-a-web-based-tool-for-visualization