Identification of novel non-coding RNAs using profiles of short sequence reads from next generation sequencing data

Table 4 Experimental validation results for selected novel ncRNA candidates.

	Type	tag-depth	TC size (nt)	Estimated size from Northern blot (nt)	Gene
snoHACA_01	box H/ACA snoRNA	105	145	~ 150	SC35
snoHACA_04	box H/ACA snoRNA	234	143	~ 130	Dek
snoHACA_05	box H/ACA snoRNA	106	137	~ 170	hts
snoHACA_06	box H/ACA snoRNA	1555	158	~ 130	CG31191
snRNA_01	snRNA:U4atac	282	150	~ 150	cno
snoCD_01	box C/D snoRNA	27	74	N/A	N/A
snoCD_02	box C/D snoRNA	42	81	~ 85	kis
snoCD_05	box C/D snoRNA	566	74	~ 70	x16/nop
snoCD_09	box C/D snoRNA	27	80	N/A	N/A
snoCD_24	box C/D snoRNA	993	69	~ 59	N/A
ncRNA_01*	Group1	5027	20~ 25^†	18/21/26	^‡
ncRNA_38	Group3 (intron)	1418	159	~ 150	v(2)k05816
ncRNA_39	Group3 (intron)	582	198	~ 90/~ 190	D
ncRNA_47	Group3 (intron)	418	124	~ 70	gc1
ncRNA_54	Group3 (intron)	153	93	~ 49/~ 55	Stet
ncRNA_64	Group3 (intron)	223	48	~ 70	CG11882
ncRNA_85	Group3 (intron)	225	72	N/A	CG1718
ncRNA_50	Group3 (intergenic)	106	172	~ 180	N/A
ncRNA_55	Group3 (intergenic)	180	79	N/A	N/A
ncRNA_62	Group3 (intergenic)	123	56	N/A	N/A
ncRNA_83	Group3 (intergenic)	116	394	N/A	N/A

*One of the 7 TCs in Group1 that shares an 18 nt long sequence. ^†ncRNA_05 which is immediately downstream of a tRNA was excluded. ^‡Introns of 6 genes shown in Table 3.

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