Question: Exons in Refseq-hg19
0
gravatar for aditi.qamra
5.1 years ago by
aditi.qamra260
Toronto
aditi.qamra260 wrote:

Hi,

I was working with the refseq genes hg19 file to define genomic regions and I downloaded 4 files from the UCSC table browser

1. with all exons

2. 5'UTR exons

3. 3'UTR exons

4 Coding exons

I realised that the no. of records in 2+3+4 are more than that in 1. It doesnt strike me at the moment, why should this be the case. Shouldn't 5 UTR+3UTR+Coding exons add up to total no. of exons in the genome ? Or am I missing something obvious ?

Thanks !

Aditi

 

gene • 1.5k views
ADD COMMENTlink modified 5.1 years ago by Renesh1.7k • written 5.1 years ago by aditi.qamra260
1
gravatar for Renesh
5.1 years ago by
Renesh1.7k
United States
Renesh1.7k wrote:

One of possibility is that the UTR can be represented in the multiple exons. So the some of exons in coding exons file may have UTRs embedded in the coding exons You need to find coordinates of UTRs and check it, whether is is represented in coding exons or not.

ADD COMMENTlink written 5.1 years ago by Renesh1.7k
2

To add to this there's also noncoding RNA in refseq, which have a 5'UTR sequence and no coding exons.

ADD REPLYlink written 5.1 years ago by Vivek2.3k
1

I can guarantee that this is the case. UTRs will commonly share exons with coding sequence.

ADD REPLYlink written 5.1 years ago by Devon Ryan92k
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