I need to do a synteny analysis of 250 genes, belonging to bacterial species from across the whole kingdom, all of which are part of the same superfamily (of genes).

Xbase is currently down, the database from http://mgcv.cmbi.ru.nl/ is too incomprehensive (does not recognise some of my uncommon organisms) and http://toolkit.tuebingen.mpg.de/gcview/waiting/7869729 is too slow and weak in terms of its programming. 

Ultimately what I need is a genomic context view of, at least, the two flanking genes to my genes of interest. Due large sample size I need a database, where I can just dump all the locus ID tags I have and get a graphic (or otherwise) view.

Thank you

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