Hello guys,
I've order some siRNA from a company, and they gave the following sequence.
I've tried looking up the sequence in the genome but I could not manage to find it.
Does anyone knows a good tool where I can do it?
Here are some of my sequences, as an example:
2 nmole Screening DsiRNA Oligo rGrCrUrCrUrCrArArArUrCrArCrA...
2 nmole Screening DsiRNA Oligo rUrUrUrUrArArUrArGrCrUrUrGrU...
Thanks a lot,
Regards,
1. You may use NCBI BLAST to search for your siRNA sequence against the genome of interest and identify potential matches. [2 nmole Screening indicates that a 2 nanomole (nmole) quantity of the siRNA oligo has been prepared for screening or experimental purposes. The quantity of the oligo is often specified to ensure sufficient material is available for the intended experiments. DsiRNA" or "Dicer-substrate RNA" is a type of small interfering RNA (siRNA) that is designed to be processed by the enzyme Dicer in the RNA interference (RNAi) pathway. DsiRNA molecules are typically 27-29 base pairs in length and are designed to trigger gene silencing by targeting specific mRNA sequences for degradation. Convert the sequence to DNA format. It's recommended to remove any non-nucleotide characters and ensure the sequence is in uppercase. Please note that the cleaned sequence represents the complementary DNA strand of the original siRNA sequence. In BLAST, you typically search for complementary matches against a DNA database.]
2. Here is another tool https://www.genscript.com/tools/sirna-target-finder
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