Hi
I am trying to map Y chromosomal coordinates from build hg18 to hg19. Last week when I used the Lift Genome Annotations Tool using the NCBIBuild36 coordinates (chrY:12838588-13879980), I obtained the GRCh37 Coordinates (chrY:14328588-15370586) but now I get a message indicating "Split in new". When I check in Ensembl it gives the following message: This data includes 10 gaps where the input coordinates could not be mapped directly to the output assembly. Y Ensembl .sdf 14726405 15370586 - . Y Ensembl .sdf 14716432 14725776 - . Y Ensembl .sdf 13226453 13226453 - . Y Ensembl .sdf 14709281 14716431 - . Y Ensembl .sdf 13219301 13219301 - . Y Ensembl .sdf 14664254 14709280 - . Y Ensembl .sdf 13174273 13174273 - . Y Ensembl .sdf 14661473 14664253 - . Y Ensembl .sdf 13171483 13171491 - . The region is a well behaved single copy X degenerate region that was sequenced from, if I recall correctly, BAC clones from a single individual. I was unable to find any reference to a recent change in the Y annotation and was wondering if you could assist in trying to ascertain what may have happened. With best wishes Qasim --- Qasim Ayub Team 19: Human Evolution Room Number E2-18 The Sulston Laboratories The Wellcome Trust Sanger Institute Wellcome Trust Genome Campus Hinxton, Cambridge CB10 1SA United Kingdom E-mail: [email protected] Tel: +44-(0)-1223-834244 Ext:7652 Fax: +44-(0)-1223-494919 -- The Wellcome Trust Sanger Institute is operated by Genome Research Limited, a charity registered in England with number 1021457 and a company registered in England with number 2742969, whose registered office is 215 Euston Road, London, NW1 2BE. _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
