Hi,

I have put a sequence in CHO cell and it has some expression problems, am sure there are various reasons for this.

I specifically only want to see if the sequence we input has some RNA structures that are causing a hairpin loop type self complimentary secondary structure. So ideally am looking for software that can take a DNA sequence and tell us possible transcripts arising from it and any self complimentary in those structures.

If this can look into the transcription in CHO cell-specific context, that would be even better.

thanks,