# STOCKHOLM 1.0
#=GF ID PVT1_3
#=GF AC RF02166
#=GF DE Pvt1 oncogene conserved region 3
#=GF AU Eberhardt R; 0000-0001-6152-1369
#=GF GA 45.0
#=GF NC 44.3
#=GF TC 46.1
#=GF SE Predicted; CMfinder; Eberhardt R
#=GF SS Predicted; CMfinder;
#=GF TP Gene; lncRNA;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 19.64 -Z 2958934 CM SEQDB
#=GF DR SO; 0001463; lincRNA;
#=GF RN [1]
#=GF RM 17503467
#=GF RT The PVT-1 oncogene is a Myc protein target that is overexpressed in
#=GF RT transformed cells.
#=GF RA Carramusa L, Contino F, Ferro A, Minafra L, Perconti G, Giallongo A, Feo S
#=GF RL J Cell Physiol. 2007;213:511-518.
#=GF WK PVT1
#=GF SQ 25

AC103705.5/32657-32751     CCCUCAAGAUG-GCUGUGCCUGUCAGCUGCAUGGAGC--UUCGUUCAAGUAUUUUCU-GAGCCUGAUGGAUUUACAGUGAUCUUCAGUGGUCUGGGGAA
AANG01541995.1/1375-1281   CCCUCACGAUG-GCCGUGCCUGUCGGUUACAUGGAGC--UCCAUUCAAGGAUUUUCG-GAGCCUUUUGGAUUUACAGUGAUAUUCAGCUGCCUGGGGAA
AAFC03046547.1/46341-46248 CU-UCAUAAUG-ACUAUACCUGUCAGUUGUGUGGAGC--UACAUUGAAGAUUUUUCU-GAGCCUGAUAGAUUUACAGUGAUAUGCAGCUGCCUGGGGAA
ABRP01042655.1/8732-8639   CC-UCAUGGUG-ACUGUGCCUGUCAGCUGCAUGGAGC--AUCGUUCAAGGAUUUUCU-GAGCCUGAUGGAUUUAUAGUGAUAUUUGGCCAUGUGGGGAA
AAWR02021559.1/33435-33529 CUGUCAUGCUG-GCUGCGCCCGUCAGCUGCAUGCAGC--UUCGUUCAAGGAUUUUUG-GAGCCCUGUGGAUUUACAGUGAUACUCGGCCGCCUGGGGGA
ABVD01506303.1/709-804     CCCUUGCGAUG-GCUGAACCUGUCAGUUGCCUGGAGC--CAAGUCCAAGGAUUUUUCUGAGCCUGAUGGAUUUACAGUGAUCGUUGGUGGCCUGGGGAA
ABRN01401776.1/594-501     CC-UCGUGAUG-ACUGCAUCUGUCUGUUGCAUGGAGC--UUCACUGAAGGACUUCCU-GAGCCUGAUGGAUUUACAAUGAUACUCAGGUGCCUGGGGAA
ABDC01485147.1/1245-1149   CCCUCAUGAGG-ACUGUGCCUGUCAGCUGCAUGAAUCCUUCCAUUCCAGGAUUUUCG-GAGCCUGAUGGAUCUGCAAUGAUAUUUGGCUGCCUGGGGAA
AAGV020411855.1/961-1055   CCCUCGCGAUG-GCCAUGCCUGUCAGUCGCCCGGAGC--UUCGCUUGAGGAUUUUCU-GAGCCUGAUGGAUUUACAGUGACCGUGGGCCGCCCGGGGAA
ABRR01414933.1/772-865     CCCUCAAGAUG-GCCGCACCUGUCAGCUGCUUGGAAC--GUCCUUCAAGGCUAUGCU-GAACCUUAUGGAUUUACAGUGAUACCCGGCCGCCUG-GGAA
AAPY01762735.1/1414-1507   CCAUCGUGAUG-GCUGUGCCCGUCAUUUGUGUGGAGC--UUCUGUCAAGGAUUUUCA-GAGCCUGAUGGAUUUACAGUGACACUCAACCACCUG-GGAA
ABRT010462759.1/1803-1712  CCCUCAUGAGG-ACUGUUCCUGUCAGUUGCAUGAAAA--UUCAUUCAAGAAUUUUCU-GAGCCUGAUGGAUUUACA---AUACUUGGCUGUCAGAGGAA
AAQQ01353359.1/4059-4151   UGCUCAACACA-GCUGCGC-UGCCAGUCGCAAGGGCC--UCCCUCUAGAUUUUUCCU-GACC-UGAUGGAUUUGUGGUGAUGUUCAGUCUCCUGGGGAA
ABGA01149833.1/1040-1134   CCUUUAUAAUG-GUUAUGGCUGUCACUCGCCUGCAG---UUUGUUCAAGUAUUUUUCUGAGCCUGGUGUAAUUACAGUGAUAUUCUGUGGCCUGGGGAA
AAKN02041847.1/35193-35101 CC-UCAAGACU-GCUGAGCCUGCCAGUUGCACAGAGC--UGUGUCUAGAGGUUUUCU-GAGCACAGUGGAUUUACAGCGAGAUUCAACUGCCUGGGGG-
ABRQ01432567.1/1524-1601   ---U---------------CUGCCAGUUGCACAGAGC--AUUGUUCACGGAUUUUCC-GAGCCUGAUGGAUUUACAGUGAUAGUCGGCUACCUGGGGAC
AAHX01051114.1/29063-29155 CC-UCCAGGAG-GCUGUGCUUGCAGACUCCACGGAGC--CUCUCUCAA-GAUUUCCU-GAACCUUGUGGAUUUACAGUAAGACGAAGUUCCCUGGGGAG
ABQO010461830.1/3037-2947  GCCUCCCGACA-GUUUUCC-UG--UGUUUUCUGGAGC-UGCUGCUCAAGGCUUUCCC-AGACCUG-UGGAUUUACAGACAUACUGAGCUGCCUGGGGG-
AAHY01122720.1/3525-3610   UCCAUCAGCAG-GCCGUGUCUGC--------UGGGAC--CUCUCUGGA-GACUUCCU-GAACCCUGUGGAUUUACAGUAAGAUGCAGUUUCCUGGGGAG
AAYZ01185222.1/2430-2341   -CACAGUGAGG-ACAGUGCCUGUCAGCAACACGGAGC--UUCAUUCAG----ACUCU-GGGUCUGACAGAGCUGCAGUGAUGUUUUUUCAUUAGUGUGA
AAPE02026189.1/23420-23328 CCUACCCCGUG-GCCAUACCUGUCCGCUGCAUGGAGC--GUCACUCGAGGAUUUCCC-GCGC-GUGUGGAUUUACAGAGAUGUCCAGCUGC-UGCGGAA
AAEX03016758.1/3204-3110   CC-UUGUGAUGAACUGUGCCUAUCAGUUGCAUGGAGC--UUCAUUCAAGAAUUUUCU-GAGCCUGAUGGAUGUACAACGAUACUCAACCACCUGGUGAA
AAQR03010386.1/18628-18534 AUCUCGUGAUG-GCUGUGCCUGUCAGUUACGUGGAGC--UUUGCCCAGGGAUUUCCU-GAGCCUGCUGGAUUUACAGGGAUAUUUGGCCAUCUGAGGAU
AAGU03023649.1/45561-45638 ------------------CCUGCCAGUUGUGUGGAGC--CUUGUUCACGGAUUUUCU-GAGCCUGAUGGAUUUACAGUGAUAUUUGGUUGCCCGGGGAA
AAGW02022553.1/67224-67315 UU-UCAUGAGA-ACUGUGCCUGUCAGCUGCAUGGAGU--UUGAUUCAA--ACAUUCU-GAGCCUGAUGAGUUUACAGUGAUGCUGGGCUUCCUGGGUAA
#=GC SS_cons               :::::::::::.:::::::::::::::::::::::::..::::::::::::::::::.:::::::::::::::::::::::::::::::::::::::::
#=GC RF                    cCcUCauGAuG.GCUGUGCCUGUCAGUUGCaUGGAGC..uUcgUUCAaGGaUUUUCu.GAGCCUGaUGGAUUUACAGUGAUauUcaGcugCCUGGGGAA
//
