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How to get distingushable CDS and UTR sequences of gene from biomart?

Hi all,

I would like to have CDS and UTRs sequences of some genes so that I cab distinguish CDS from UTR. I know there is such possibility in the UCSC genome browser, which CDS and UTRs are shown in the upper case and lower case, respectively. Could you please let me know there isthe similar possibility in the biomart?

coding biomart sequence utr
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updated by Ram Ram • written by sohra • sohra

1 answer

Select "CDS start" and "CDS end" as attributes and then get the cDNA sequence. Things won't be upper/lower case, but the start/stop coordinates for the CDS will be in the header for each entry, so just parse that out.

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written by Devon Ryan Devon Ryan

Thanks Devon,

I would be appreciated if you could clear me how parse the out as you mentioned "so just parse that out". Sorry if you found the question is basic, it's a big for me as a beginner.

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written by sohra • sohra

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