Limited evidence for evolutionarily conserved targeting of long non-coding RNAs by microRNAs

Silence

Table 1 Pan-mammalian conserved 8-mer putative microRNA target sites in cytoplasmic intergenic long non-coding RNAs (lncRNAs)

Target GENCODE	Target	MicroRNA family	Site	Site genome	Cabili et al.	UniProtKB/Swiss-Prot
ID	symbol		chromosome	position	lincRNA^a	BLAST^b
ENSG00000226856.1	AC093901.1	miR-182	chr2	118940821	Yes	No hits
ENSG00000231532.1	AC022311.1	miR-133abc	chr2	4676715	Yes	No hits
ENSG00000231532.1	AC022311.1	miR-22/22-3p	chr2	4676706	↑	↑
ENSG00000231532.1	AC022311.1	miR-383	chr2	4676629	↑	↑
ENSG00000233491.2	AC010091.1	miR-133abc	chr7	81218260	Yes	E=4e-5(Human FAT4)
ENSG00000233491.2	AC010091.1	miR-9/9ab	chr7	81218258	↑	↑
ENSG00000236719.2	RP11-522D2.1	miR-30abcdef/30abe-5p/384-5p	chr1	180535222	Yes	No hits
ENSG00000245017.1	AC013418.2	miR-138/138ab	chr12	98879829	Yes	No hits
ENSG00000248927.1	CTD-2334D19.1	miR-135ab/135a-5p	chr5	120126269	Yes	No hits
ENSG00000248927.1	CTD-2334D19.1	miR-19ab	chr5	120126442	↑	↑
ENSG00000250366.1	AL133167.1	miR-218/218a	chr14	96389499	Yes	No hits
ENSG00000253507.1	CTD-2501M5.1	miR-146ac/146b-5p	chr8	132329800	No	No hits

^aAnnotated as a long non-coding RNA in Cabili MN, Trapnell C et al., Genes and Development (2011).
^bHits with BLAST E-value <0.5. Repeat masking was performed to avoid matches to, for example, translated SINEs in SwissProt.
Genomic coordinates refer to the Hg19 assembly.