Figure 4

Experimental verification of two differently scoring ncRNAs by Northern hybridization. A. The element predicted in cluster 159 is transcribed from the forward strand (green), in the same direction as the preceding fabF (slr1332) gene. Six 5'RACE sequences support the transcript start of SyR1 to be located 55 nt 3' of the fabF reading frame at position 1671919 (grey arrow). Two different blots are shown, one in which RNA was separated in an high-resolution polyacrylamide gel and one resulting from an agarose gel. B. The element predicted with the CLID 294 was named SyR2. This ncRNA is longer than the IGR where it is encoded (~140 nt versus 94 nt spacer length). A transcript start was found by 5' RACE within apcC, 49 nt before the end of apcC (grey arrow). The schemes are drawn to scale. All protein-coding genes are displayed in gray, all ncRNA genes in green; M, molecular mass marker, R, lane in the RNA gel before blotting, H, hybridization.