Hi
I'm just starting to work with NGS, and my first task is to prepare a reference sequence with splice sites. To do this I used the annotation table knownGene.txt from UCSC ftp server (ftp://hgdownload.cse.ucsc.edu/goldenPath/hg18/database). Reference sequence build is 36.1.
I attach an example of extracted splice sites for first 10 genes from knownGene.txt annotation table, for 32 base pairs on each splice site.
I would appreciate the information, if it is done properly and if not, what is wrong/missing.
Thanks
I'm just starting to work with NGS, and my first task is to prepare a reference sequence with splice sites. To do this I used the annotation table knownGene.txt from UCSC ftp server (ftp://hgdownload.cse.ucsc.edu/goldenPath/hg18/database). Reference sequence build is 36.1.
I attach an example of extracted splice sites for first 10 genes from knownGene.txt annotation table, for 32 base pairs on each splice site.
I would appreciate the information, if it is done properly and if not, what is wrong/missing.
Thanks
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