hg19 annotation with sequence ontology

Question

[sacha]

I wonder if an annotation database exists which contains all known feature across the whole genom hg19 using keywords from sequence ontology ?

Answer 1

[Denise CS]

If you are interested in variants annotated according to the SO terms, download the VEP file from the Ensembl FTP for GRCh37 (=hg19).

[sacha]

Thanks , it exacly what I need ! I give you all my gold !

Answer 2

[Asdp]

You can use Variant Effect Predictor or SnpEff to annotate Sequence Ontology features.

http://www.ensembl.org/info/genome/variation/predicted_data.html

http://snpeff.sourceforge.net/