Question: Naming Maf Blocks
0
Vesselin Baev • 50 wrote:
Dear all,
I heve done this in steps:
1. Go to genome.ucsc.edu and select the tables link.
2. Select the clade, organism, and assembly that you are interested
in.
3. Select Genes and Gene Predictions from the group.
4. Select UCSC genes from track.
5. From region select genome.
-from Paste List I put my needed list of genes.
6. From output format select custom track.
7. Select get output.
8. On that page put in utr3 in the name, and select 3' UTR exons.
9. Select get custom track in table browser.
10. Select Comparative Genomics from group.
11. Select Conservation from track
12. Select 28-multiz from table.
13. Click on the create button in the intersection line.
14. Select Custom Tracks from the group.
15. Select utr3 from the track.
for example I have 100 genes (in Paste List) that I get UTRs from them
and use in intersection line.
I got MAFs that exceed 100 pieces, every MAF have coordinates, but how
to see which MAF blocks are for the first UTR (of some gene)? is there
a way to name the MAF blocks?
Vesko
--
Dr. Vesselin Baev
University of Plovdiv
Dept. Molecular Biology
Bioinformatics Group
Tzar Assen 24
Plovdiv 4000, BULGARIA
032/ 261 (534)
089/ 43 80 945
Skype: vesselin_baev
vebaev@gmail.com
baev@uni-plovdiv.bg
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modified 10.6 years ago
by
Daniel Blankenberg ♦♦ 1.7k
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written
10.7 years ago by
Vesselin Baev • 50
