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Question: How to find exonic and intronic regions from a set of coordinates?
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gravatar for asfiashahid928
21 months ago by
asfiashahid928 • 0
asfiashahid928 • 0 wrote:

Hey, could anyone please help me with it? I have few coordinates of different chromosomes. I want to know that either these coordinates represents introns or exons. Is there is any kind of software that accepts coordinates as an input and gives us the output that this set of coordinates represents an exon and this set represents an intron? or a way to do it manually??
rna-seq assembly • 742 views
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modified 21 months ago by Jennifer Hillman Jackson ♦ 25k • written 21 months ago by asfiashahid928 • 0
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gravatar for Jennifer Hillman Jackson
21 months ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Compare the overlap between your coordinates and other datasets that contain coordinates that represent exons versus introns. Tools in the group Operate on Genomic Intervals are one choice.

The Galaxy 101 tutorial covers a very simple example of comparing two datasets (SNPs overlapping Exons, based on genomic coordinates) and should help you to understand the general process: https://new.galaxyproject.org/tutorials/g101/

Thanks, Jen, Galaxy team
ADD COMMENT • link written 21 months ago by Jennifer Hillman Jackson ♦ 25k
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