SwissRegulon, database of genome-wide annotations of regulatory sites


SwissRegulon annotation of Transcription Start Sites and Transcription Start Clusters generated with FANTOM4 CAGE data.


Data available at:, and
Input file formats: GFF


From Human Feb. 2009 (GRCh37/hg19) Assembly. Available also for assembly GRCh36/hg18.

Filename Description Feature GEO-ID
1 promoters_hg18.sga Promoters TSS -
2 hg18_TSC_v1.sga Transcription Start Clusters TSC -
3 tss_clusters_level3_hg18.sga Promoters regions TSS -

Technical Notes

GFF files were converted in SGA. TSS were mapped to the 'Representative position' of the transcription start region. The files promoters_hg19.sga and tss_clusters_level3_hg19.sga are LiftedOver from hg18.


  1. Pachkov M, Balwierz PJ, Arnold P, Ozonov E, van Nimwegen E.
    SwissRegulon, a database of genome-wide annotations of regulatory sites: recent updates. Nucleic Acids Res. 2013, D214-20. PMID: 23180783