To test your genomic DNA sample for a Y chromosome deletion by assaying for the presence or absence of STSs, we recommend starting with landmark STSs. On the Breakpoint Mapper page, see figure for locations of landmark STSs and click on Table of landmark STSs under Reference Tools for information on their use.
The Reference Tools also contain links to figures displaying deletion maps of common interstitial deletions or of isodicentric Y chromosomes and Y isochromosomes. Having tested your sample with landmark STSs, you can compare your results with these STS maps.
Two modes of querying the database are available:
The resulting catalog of STSs is displayed as a table and in a custom,Y chromosome browser. Within the browser, you can click on STSs and genes for further information on their sequence.
STS sequence coordinates and Y chromosome browser positions are based on NCBI Build 38.
Due to the abundance of large repeats with >99.9% sequence identity in the MSY, numerous STSs amplify multiple loci. In the output table, such multi-copy STSs are indicated with an asterisk in the second column, and sequence coordinates of co-amplified loci are shown in the final column.
Notes of caution
Browser compatibilityFor ease of use, we recommend Mozilla Firefox or Internet Explorer.