Mapping transcript location issue.

Question

[bioinfo_ga]

Hi I have performed target prediction for human sample using miranda tool. From the result obtained i want to check which exact part of transcript is the miRNA binding to (CDS,Exome,UTR..). On checking the mapping coordinates they do not lie in between any exact coordinates of any of these features. They lie in between an exon and CDS. What could that imply ?

Thanks.

[LauferVA]

Could you confirm what you mean by CDS in distinction to an exon. I agree they are distinct (though very similar). Specifically, if you have additional insight into what kind of functional/regulatory elements each might belong to, that would help us help you.

honestly, providing the exact genomic positions and the name of the mRNA is likely to lead to the best results for you, but if you dont want to do that, we get it/more power to you.

VAL

[bioinfo_ga]

Hi !!! If my target coordinates lie between [19718487] -CDS end and [19730430]- exon start. What genomic feature it could be mapping to??

CDS 19718307 19718487 exon 19730430 19730494

[LauferVA]

hey bud - what chromosome and build of genome? It may help me know what you are asking.

[bioinfo_ga]

GRCh38.p13 from Ensembl