how to get distance of each SNPs to the transcripts' 5'UTR and 3'UTR?

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5.5 years ago

mikysyc2016 ▴ 120

Hi all, I have a SNPs list which are inside of different transcripts respectively(I have their related transcript list). And I also know the accurate chromosome location of the every SNP. Now I want to know the distance of that SNP to its transcripts' 5'UTR's beginning and 3'UTR's ending . how I can get the transcripts' start point and end point location on chromosome(which is not the location of start codon and stop codon on chromosome)? Thanks!

SNP R genome sequence sequencing • 1.0k views

ADD COMMENT • link updated 5.3 years ago by Biostar 20 • written 5.5 years ago by mikysyc2016 ▴ 120

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when I use UCSC to upload my transcripts list, then I get a table which include transcript start point and end point, while when i use txend-txstart which is much much longer than the length of that mRNA. Do you know the reason? Thanks.

ADD REPLY • link 5.5 years ago by mikysyc2016 ▴ 120

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