Identification and analysis of miRNAs in human breast cancer and teratoma samples using deep sequencing

BMC Medical Genomics

Table 3 Annotation of the miRNA candidates.

Locus ID	Annotation	Gene	RefSeq	Expression	Phastcons	Status
21019	Intron	-	AC124066.2	1,12,2,1	0.57	miR-1180
38843	Intron	ARL10	-	0,0,3,2	0.99	miR-1271
6150	Intron	C10orf33	-	4,0,1,4	1	miR-1287
6746	Intron	JMJD1C	-	1,4,2,1	1	miR-1296
27738	Intron	DNMT3A	-	3,12,7,4	0.99	miR-1301
8884	intron	FADS1	NM_013402	2,0,9,2	0.34	miR-1908
37600	repeat	-	-	136,933,146,220	0.03	alt.miR-151
52195	intron	CLCN5	NM_000084	0,4,0,0	1.00	alt.miR-500
12783	intron	PATA13	NM_153023	1,1,3,0	0.01	miRNA
19011	repeat	-	-	8,2,0,0	0.98	miRNA
41039	exon	C5orf21	NM_032042	0,2,1,0	0.46	miRNA
49828	intron	ONPEP	NM_032823	2,1,4,1	0.00	miRNA
53356	intron	PNMA5	NM_052926	7,3,0,0	0.03	miRNA
6219	intron	AK091396	AK091396	0,3,0,0	0.08	Cand
19702	intron	MAP3K3	NM_203351	84,0,1,9	0.08	Cand
21361	intron	PMP22	NM_000304	3,0,1,0	0.06	Cand
23602	exon*	PRG2	NM_002728	0,0,3,0	0.60	Cand
25697	intron	LPIN1	NM_145693	0,3,0,0	0.02	Cand
32226	exon	SHANK3	NM_001080420	3,0,0,0	0.99	Cand
52275	intron	BCORL1	NM_021946	3,0,0,0	0.99	Cand

Columns show locus ID for the putative miRNAs, annotation, gene name and RefSeq accession (where applicable), expression (read counts), and conservation. For locus 6219, where no proper gene name or RefSeq is available, GenBank accession is given instead. 'Expression' shows the raw read count for BN, BC, CRL-7826, CRL-7732, and is summed for all reads in the locus. 'Phastcons' is the average Phastcons score [52–54]. 'Status' shows if a locus is a miRNA or a candidate locus. The names of miRNAs that have already been included in miRBase are shown, with 'alt.miR-NNN' designating a predicted alternative precursor for miR-NN. *Anti-sense.

ISSN: 1755-8794