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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 mutate a restriction site without altering translation?
Program name: recoder
Notes: The EMBOSS program, "recoder" scans a given nucleotide sequence for restriction sites. It
reports single base positions in the restriction pattern which when mutated remove the restriction site whilst maintaining
the same translation (in frame 1 of the input sequence).
Example output from recoder
Start End Dir EnzymeName RS-Pattern Base-Posn AAs Mutation
152 162 . BslI CCNNNNNNNGG 153 P.P C->G
151 154 . Sth132I CCCG 153 P.P C->A
152 162 . BsiYI CCNNNNNNNGG 153 P.P C->T
155 159 . TspDTI ATGAA 156 D.D T->C
155 159 . TspDTI ATGAA 159 E.E A->G
163 168 . HinJCI GTYRAC 165 V.V T->A
etc......
Further reading: recoder background
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