Hi,
I am trying to look up all exon co-ordinates for a number of different human
(Hg18) genes using the UCSC table browser. I can identify the gene
co-ordinates using the HUGO gene name in the table browser lookup box however I
am having trouble retrieving the appropriate exon data/format.
I have been using the knownGene track in 'Genes and Gene Prediction Tracks >
UCSC Genes' as this contains the exon start / stop positions. I'm trying to
output each 'exon' with its start and stop positions on a separate line. At
the moment I can only output the data as a list of start and stop positions.
Also, I would like to include all the exons for a defined gene without
repetition, i.e. I would like the data to be transcript independent. For
example MYH7 has 39 and 40 exon entries but I would just like to see all 40
exons in my output. If it is possible to include the HUGO gene name field this
would also be incredibly useful to me.
Could anyone let me know how this can best be achieved? I have ~60 genes for
which I need to generate this data.
Regards, Christopher Watson.
_______________________________________________
Genome maillist - [email protected]
https://lists.soe.ucsc.edu/mailman/listinfo/genome
