Thirty three novel candidate sRNAs predicted by sRNAscanner AND RNA deep sequencing data or TargetRNA identification of putative cognate targets.

aThe sixteen sRNA candidates (sRNA1 – sRNA16 [shown in bold]) predicted by sRNAscanner AND identified in deep sequencing RNA libraries [37], [38] were chosen for experimental validation by Northern and 5′RACE analyses; five of these sixteen deep sequencing-supported hits, shown underlined, were also identified by TargetRNA. The remaining 17 sRNA candidates listed were associated with TargetRNA-identified putative mRNA targets.
b,csRNAscanner-predicted transcript coordinates and length (nt).
dGenes flanking candidate sRNA loci obtained from KEGG genome maps.
e5′ends of the primary transcripts identified using 5′RACE experiments.
fStable transcripts identified by Northern analysis in this or other recent studies.
gThe middle arrowhead represents the orientation of the sRNA gene; left and right arrowheads indicate orientations of flanking genes.
hPotential primary mRNA target identified using the TargetRNA tool [41].
iGenBank functional annotations of the putative target mRNAs.
lReferences relevant to the predicted target genes and/or the recently independently identified/predicted sRNAs; Full details of references indicated with ‘R’ are provided in Supporting Information (File S2).
mNT, denotes not tested.