[Genome] track on genome browser

[Ann Zweig]

Hello Sika,

	The way the introns are marked depend on a number of things including how 
closely zoomed in you are, how 'crowded' the display is, which track you are 
looking at, etc.  That said, I can give you some general information.  We try to 
indicate the direction of transcription on the gene and gene prediction tracks, 
when possible.  We will place arrows on the introns or exons, or both.

	As for the coloring of the exons, you will need to give me a bit more 
information.  What assembly are you looking at (human, mouse), and what 
annotation track are you viewing (Known Genes, Ref Seq Genes, etc.)?  You can 
always read about the details behind a track (description, methods, display, 
credits, references) by pressing on the 'mini-button' to the left of the actual 
track display, or by clicking on the hyperlinked track name in the track 
controls (below the display).  It is likely that this page will contain the 
answer to your exon-color question.  If not, please don't hesitate to contact 
the mail list again with a more detailed question.


Regards,

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

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SIKA ZHENG wrote:
> Hi, 
> 
> I have a question when reading the sequence scheme on the genome browser.  What is the difference when the intron is marked as such:
> 1.  >>>>>>>>>>>.
> 2. _________________
>     _________________
> 
> and there is hybrid between them too. 
> 
> i am also confused by the meaning of blue, orange, black, green exon.  
> 
> I look forward to the answer from experts.  
> Thanks,
> Sika
> _______________________________________________
> Genome maillist  -  Genome at soe.ucsc.edu
> http://www.soe.ucsc.edu/mailman/listinfo/genome