# STOCKHOLM 1.0
#=GF ID KCNQ1OT1_3
#=GF AC RF01948
#=GF DE KCNQ1 overlapping transcript 1 conserved region 3
#=GF AU Eberhardt R; 0000-0001-6152-1369
#=GF GA 60.0
#=GF NC 40.9
#=GF TC 69.8
#=GF SE Predicted; ClustalW; Eberhardt R
#=GF SS Predicted; RNAalifold;
#=GF TP Gene; lncRNA;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 2958934 CM SEQDB
#=GF DR SO; 0001463; lincRNA;
#=GF DR GO; 0031507; heterochromatin assembly;
#=GF DR GO; 0005730; nucleolus;
#=GF RN [1]
#=GF RM 18299392
#=GF RT Kcnq1ot1/Lit1 noncoding RNA mediates transcriptional silencing by
#=GF RT targeting to the perinucleolar region.
#=GF RA Mohammad F, Pandey RR, Nagano T, Chakalova L, Mondal T, Fraser P, Kanduri
#=GF RA C
#=GF RL Mol Cell Biol. 2008;28:3713-3728.
#=GF WK KCNQ1OT1
#=GF SQ 9

AC021424.6/153260-153145     AAACAUGCCUUUGAAUUGGAAA-GCCAGAACUUUUU--GCAAAAUAAUUUGAAAAGUUUGUUGAACCUUAAA-CCUUUCCUGAUGACUCCUUCCUUCUGAACUUAA-CUCGUUAAA-GUUGC
AAKN02038604.1/124558-124443 AAACAUGCCCGGGAAUUAGAAA-GCCAGAACUUUUU--GCGAAAUAAUUCGAAAAGUUUGUUGAACCUUAAA-CCUUUCCUGAUGACUCCUUCCUUCUGAACUUCA-CUCAUUAAA-GUUGC
AAWR02038047.1/27233-27348   AAGCAUGCCUUUGAAUUUGAAA-GCCAGAACUUUUU--GCAAAAUAAUUCAAAAAGUUUGUUGAACCUUAAA-CCUUUCCUGAUGAUUCCUUCCUUCUGAAGUUAA-CUCGUUAAA-GUUGC
AF313069.1/487-605           AAACAUGCCUUUGAAUUGGAAA-GCCAGAACUUUUUUUGCAAAAUAAUUCAAAAAGUUUGUUGAACCUUAAA-CCUUUCCUGAUGACUCUUUCCUUCUGAACUUCA-CUCGUUAAAAGUUGC
ABDC01330647.1/1037-1154     AAACACGCCUUUGAAUGGGAAA-GCCAGAACUUUUU--GCAAACUAAUUCGAAAAGUUUGCUGAACCUUAAAACCUUUCCUGAUGACUCCUUCCUUCUGAACUUAAACUUGUUAAA-GUUGC
ACBE01354043.1/875-989       AAACA-GCCUUUGAAUUUGAAA-GCCAGGACUUUUU--GCAAAAUAAUUCAAAAAGUUUGUUGAACCUUAAC-CCUUCCCUGAUGAGUCCUUCCUUCUGAAGUUAA-CUCGUUAAA-GCUGC
AAQQ01580780.1/1283-1395     GCAAGCGCCUGGCGAUUGGAAA--GCAGAGCAUUCU--GCAAAAUGAUUCAAAAAGUUUGUUGAAC-UUAAA-CCUCUCCUGACGACUCCUUGCUUCUGAACUGCA--CUGUUAAA-GUCGC
AAGW02076532.1/32479-32595   AAACACGCCUCUGAAUUGGAAAAGCCAGAACUUUGU--GCAAAAUAAUUCGAAAAGUUUGUUGAACCUUAAA-CCUUUCCUGAUGACUCCUUCCUUCUGAACUUAA-CUCGUUCAA-GUCGC
AABR05014403.1/15454-15571   GAACAUGCCUUUGAAUUGGAAA-GCCAGAACUUUUUU-GCAAAAUAAUUCAAAAAGUUUGUUGAACCUUAAA-CCUUUCCUGAUGACUCCUUCCUUCUGAACUUCA-CUCGUUAAAAGUUGC
#=GC SS_cons                 ::::::::::::::::::::::.:::::::::::::..::::::::::::::::::::::::::::::::::.:::::::::::::::::::::::::::::::::.:::::::::.:::::
#=GC RF                      aaACauGCCUuuGaAUUgGAAA.GcCAGAaCUUUuU..GCAAAaUaAUUCgAAAAGUUUGUUGAACCUUAAa.CCUUUCCUGAUGAcUCCUUcCUUCUGAAcUuaA.CUcGUUaAA.GUuGC
//
