[Genome] Chimp ESTs

[Brooke Rhead]

Hello Pufeng,

The chimpanzee (panTro2) assembly is a special case in the Genome 
Browser.  Because there are very few GenBank sequences for chimp, and 
because the human and chimp assemblies are so similar, we have included 
human sequences in the "native" alignments for chimp.  This affects four 
tracks:

RefSeq
mRNAs
ESTs
Spliced ESTs

The fact that these tracks include human sequences is noted on the track 
description pages (click on the track name in the Genome Browser).

These two download files are also affected:

est.fa.gz
xenoMrna.fa.gz

We have now updated the description on:
http://hgdownload.cse.ucsc.edu/goldenPath/panTro2/bigZips/
to reflect the inclusion of human sequences in these files.

--
Brooke Rhead
UCSC Genome Bioinformatics Group



Pufeng Du wrote:
> Hi
> 
>  
> 
> I have found that the est sequences in the following file are human ests,
> not chimps.
> 
>  
> 
> HYPERLINK
> "http://hgdownload.cse.ucsc.edu/goldenPath/panTro2/bigZips/est.fa.gz"http://
> hgdownload.cse.ucsc.edu/goldenPath/panTro2/bigZips/est.fa.gz 
> 
>  
> 
> Is this an error of UCSC database?
> 
>  
> 
> ---
> 
> Pufeng Du, Phd. Candidate
> Email: HYPERLINK
> "mailto:dpf05 at mails.tsinghua.edu.cn"dpf05 at mails.tsinghua.edu.cn
> 
>  
> 
> 
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