Hello again Hk, Yes, this designation means that the transcript does not code for a protein according to the data sources. No other attributes should be derived from this information. The transcript can still be single-exon or multi-exon.
No component sequences (if any) or other annotation is considered when generating the alignment. This sequence is compared to the reference genome using BLAT. For the full methods, please see the track description (click on the track name from within the browser). I hope this information is helpful. Please feel free to contact the help mailing list again if you require further assistance. Best regards, Jen UCSC Genome Browser Support http://genome.ucsc.edu/contacts.html [email protected] [email protected] On 6/11/10 12:43 PM, Kelkar, Hemant wrote: > Hi Jennifer, > > Does that mean these genes are "non-'protein'-coding" but potentially still > contain exons (e.g. uc001aaa.3)? > Are these computationally predicted exons or are they based on human RNA's > and spliced EST data in GenBank? > > Thanks, > > Hk > > -----Original Message----- > From: Jennifer Jackson [mailto:[email protected]] > Sent: Friday, June 11, 2010 3:16 PM > To: Kelkar, Hemant > Cc: [email protected] > Subject: Re: [Genome] UCSC hg19 KnownGenes file > > Hello Hk, > > The transcripts having knownGene.cdsStart == knownGene.cdsEnd are non-coding. > > This will be the method to detect non-coding genes for many of the tracks in > the Gene and Gene Predictions track group (example: RefSeq Genes, > "refGene.cdsStart == knownGene.cdsEnd" are non-coding). > > We hope this is helpful. Please contact the list again if you would like more > help. > > Thank you, > Jen > > --- > UCSC Genome Browser Support > Jennifer Jackson > [email protected] > [email protected] > > > > On 6/11/10 10:20 AM, Kelkar, Hemant wrote: >> Dear UCSC Genome Team, >> >> In the current human known genes file (knownGene.txt for hg19) several >> entries have the same number for Coding region start (cdsStart) and end >> (cdsEnd) fields. Is there a simple explanation for this? >> >> Thanks, >> >> Hk >> >> _______________________________________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
