[miso-users] 3'UTR isoforms

[Charizanis,Konstantinos]

Hi all,

I've analyzed some RNA-seq data using the extended Bin-Tian 3'UTR annotation which gives more than one isoforms.
The end result does not give any coordinates though (or maybe it does but I can't figure out what's what).
Under isoforms for the gene Hspa13 that has 3 isoforms that's what the results show

'Hspa13:75758693.1.0','Hspa13:75758693.2.0','Hspa13:75758693.3.0'

That means nothing to me. When I do polyA seq I can map my reads back to the genome and they are the actual polyA sites with coordinates. How can I figure out/visualize the different isoforms at UCSC? If I plug in the bedgraph files I will probably see the big (over 40%) changes and figure out that this is the polyA site but that would take quite some effort.

Anyone has insight to this?

Thank you!

Kostas

P.S. this is the entire row for the gene Tm7sf3

event_name

sample1_posterior_mean

 sample1_ci_low

 sample1_ci_high

 sample2_posterior_mean

 sample2_ci_low

 sample2_ci_high

diff

bayes_factor

isoforms

 sample1_counts

 sample1_assigned_counts

sample2_counts

sample2_assigned_counts

 chrom

 strand

 mRNA_starts

 mRNA_ends

Tm7sf3

0.43,0.30,0.27

0.11,0.03,0.02

0.86,0.69,0.73

0.01,0.01,0.98

0.01,0.00,0.96

0.02,0.02,0.99

0.42,0.29,-0.71

6.49,1.25,586.86

'Tm7sf3:146552543.1.0','Tm7sf3:146552543.2.0','Tm7sf3:146552543.3.0'

(0,0,0):46,(1,0,0):6,(1,1,0):2

0:08

(0,0,0):75,(1,0,0):18,(1,1,0):3,(1,1,1):21

0:18,1:3,2:21

chr6

-

146,550,875,146,552,000,000,000,000

146,552,543,146,552,000,000,000,000


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