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Bioinformatics FAQ
There are a large number of bioinformatics programs available to CBRG account holders via this web site. These
examples (Frequently Asked Questions) are used to illustrate the use of these tools
in answering typical queries posed by researchers.
The major web-based tools from the CBRG are listed, here.
Can I create a restriction site without altering translation?
Program name: silent
Notes: The EMBOSS program, "silent" looks for positions in a sequence where a point mutation could
be made to introduce a specified restriction enzyme recognition site without changing the translation.
Output from silent - looking for silent mutations that would create either BamHI or EcoRV restriction sites in the
Xenopus tropicalis cDNA, EMBL:CR848364
Start End Dir EnzymeName RS-Pattern Base-Posn AAs Silent Mutation
678 683 . EcoRV GATATC 681 I.I Yes T->A
1756 1761 . EcoRV GATATC 1761 I.I Yes T->C
543 538 Rev BamHI GGATCC 538 S.S Yes A->C
660 655 Rev BamHI GGATCC 655 S.S Yes A->C
747 742 Rev BamHI GGATCC 745 G.G Yes G->A
Further reading: silent background
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