[Genome] cds table

[Ann Zweig]

Hello,

	I suggest that instead of the cds table, you use the all_mrna table to find 
what you're looking for.  The fields you will be interested in will be these:

qName = name of mRNA

strand = + or - for strand. First character query (mRNA), second character 
target (genome)

tName = name of chromosome in genome
tStart = start location in genome
tEnd = end location in genome

	Note that if the mRNA aligns to the - strand of the genome, then the 'start' of 
the mRNA will be found in the tEnd field (not the tStart field).

	I hope this information is helpful to you.  Please don't hesitate to contact 
the mail list again if you require further assistance.


Regards,

----------
Ann Zweig
UCSC Genome Bioinformatics Group
http://genome.ucsc.edu

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st kumer wrote:
> Hi,
> I downloaded the cds table in order to find the start
> point of the coding region in each mrna.
> In the field 'name' I see that the format is not
> always start..end and can be more complex, like:
> <start..end
> <start..end>
> start..>end
> complement(<start..>end)
> join(<1..306,307..1065)
> n/a
> 
> Where can I find what is the meaning of each format?
> Thanks!
> 
> 
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