# STOCKHOLM 1.0 #=GF ID VIS1 #=GF AC RF01992 #=GF DE Viral integration site 1 #=GF AU Eberhardt R; 0000-0001-6152-1369 #=GF GA 100.0 #=GF NC 42.6 #=GF TC 115.3 #=GF PI HIS-1 #=GF SE Predicted; ClustalW; Eberhardt R #=GF SS Predicted; Pfold; #=GF TP Gene; lncRNA; #=GF BM cmbuild -F CM SEED #=GF CB cmcalibrate --mpi CM #=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 30.59 -Z 2958934 CM SEQDB #=GF DR SO; 0001263; ncRNA_gene; #=GF RN [1] #=GF RM 9031624 #=GF RT Evolutionary conservation of putative functional domains in the human #=GF RT homolog of the murine His-1 gene. #=GF RA Li J, Rhodes JC, Askew DS #=GF RL Gene. 1997;184:169-176. #=GF WK VIS1 #=GF SQ 27 U10269.1/831-1031 -UGGCAAGGCUGACAUAGC--UUUUACUGAUC-UGUCUGUUU-AGUGAGUGGACAGGA-UGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACUACUAGACAUUUUAUUUAAAAU-CUGGCACUGGCUU-UGGAGAGGUGAGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACACAAACAGGC AAHX01021520.1/88041-87840 -UGGCAGGGCCAACGUAGC--UUUUACUGAUU-UGCCUGUUU-AGCAAGUGGACAGGA-UGCCAGUCUGGCAGUUUGUGUUGACGAUAAAUCACAACUAGACAUUUUAUUUAAAAU-CUGGCACUGGCUU-GGGAGAGGUGAGGGAUUGUCGAUUUGUUUUUAUUUUGGAGGCCAGGCACAA-UCAUAACACAAACAGGC ABDC01349465.1/5059-5260 -UGGCAAGGUUGACAUAGC--UUUUACUGAUU-UGUCUGCUU-AGUAGGUAAGCGGGGCUGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCUU-GGGGGAGGUAAGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACAUACACAGGC ABRO01323638.1/1086-1287 -UGGCAAGGUUGACCUAGC--UUUCACUGAUU-UGUCUGCUU-AGUAGGUAAAUGGGGCUGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCUU-GGGGGAGGGGAGGGACUGUCAAUUUGUUUUUAUUUUG-AGGCCAAGCACAG-UCAUAACAUACACAGGC ABRQ01083001.1/213-413 -GGGCAAAGUUGACAUAGU--UUUUACUGAUU-UGUCUGCUUAGU-AGGUAAUGGGA-CUGCAAGUCUGGCAGUUUGCGUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAU-UUGGCUCUGGCUUGGGGGA-GGUAAGGAAUUGUCAAUUUGCUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACACACAUGGGC ABVD01000942.1/1332-1533 -GGGCAAGUUUGACCUAGC--UGUUACUGAUU-UGUCUGCUU-AGUAGGUAAAUGGGGUAGCCAAUCUGGUAGUUUGCAUUGGUAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCUU-GGGGGAGGUAAGAGAUUAUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACACACACAGGC AAWR02006338.1/126668-126867 -GGGCAAGGUUGACAUAGU--UUUUACUGAUU-GGUCUGCUU-AGUAGGUAAAUGGGGCUGCCAGUCUGGCAGUUUGCACUGGCCAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCUU-GGGGGAGGUAAGGGAUCGUCAAUUUGCUUUUCUUUUG-AGGCCAGGCACAA-UCAUAACACAC--AGGC ABRR01127926.1/4715-4916 -GGGCAACGUUGACAUCGC--UUUUACUGAAU-UGUCUGCUUAGG-AGGUGAAUGGGGCUGCCAGUCUGGCAGUUUCCACUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAG-UUGGCUCUGGCUUGAGGGA-GGUAAGGGAUUGUCAAUUUGCUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACACACACAGGC AAFC03109165.1/81244-81044 -AGGCAAGGUUGACAUUGG--UUUUACUAAUU-UGUCUGCUU-AGUAGGUAAAUGGGGUUGCCAGUCUGGCAGUUUGCACUGGCAAUAAAUCACCACUAGACAUUUUAUUUUAAAA-UUGGCACUGGCUU-GAGGGAGGUAAAGGAUUGUCAAUUUGCUUUUAUUUGA--GGCCAGGCACAA-UCAUAACAAACAUAGGC ABRN01387294.1/22195-22395 -GGGCAAGGUUGACAUAGA--UUUUACUGAUU-UGUCUGCUU-AGUAGGUAAAUGGGGUUGCCAGUCUGGCAGUUUGCAGUGACAAUAAAUCACCGCUAGACAUUUUAUUUAAAAA-UUGACACUGGCUU-GCGGGAUGUAAGGGAUUGUCAAUUUGCUUUUAUUUGA--GGCCAGGCACAA-UCAUAACACACACAGGC AAGV020005392.1/620-821 -GGGCAAGGUUGACAUAGU--UUUUUCUGUUU-UUUCUGUUU-AGUAGGUAAAUGGGGCUGCUAGUCUGGUAGCUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCUGUGGCUU-GGGGGAGGUAAGGAAUUGUCAAUUUGCUGUUAUUUUG-AGGCCAGGCACAA-UCAUAAUGCACACAGGC AAKN02006300.1/15682-15492 ---------------UGGCAAUGCUACUGGUU-UGUCUGCCUACUUAGGUGAAUGGGGCUGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACCAGUAGACAUUUUAUUUAAAAA-UUGGCACUGAUUUGGGGGA-GGUAGGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCAUAG-UCAUAACACACACAGGC AAQQ01584859.1/1510-1710 -UGGCAAG-UUAACAUAGC--UUUGACUGAUU-UGUCUGUUU-AGUAGGUAAAUGGGGCUGCCAGUCUGGCAGUUUGCAUUGGCAAUAUAUCACCACUAGACAUUUUAUCUAAAAA-UUGGCCAUAGUUU-GGGUGAGGUAAGGGUUUGUCAAUUUGUUUUUAUUUUG-AAGCCAGGCAUAA-UCAUAAUGCUCACAAGC AAYZ01070532.1/7886-8085 -UGGCAAAAUGGAUCUAGC--UUUCCCUGAUU-UGUCUGCUU-UGUAGGUACACGGGGCUGCCAGUCUGACAGUUUGCGUUGGCAAUAAAUCACCAUCAGAUAUUUUAUUUCAAAA-UUGGCACUGACUU-GGUGAAGGUAAGGGAUUGUCAAUUCAUUUUUAUUUUG-AGGCCAGGC--GA-UGAUAACACACAAAAGU AALT01491474.1/6681-6880 ------AGGUUGUUUCAGCAAACAAACUGAUU-UGUUUGCUUAGU-AGGUAACUGGG-CUGCCAGUCUGGCUCUCUGCAUUGGCAAUAAAUCACCACUAGAUGCUUUAUUUUAAAAAUUGGCACUGGCUUGAGGGGUGGUGAGGGAUUGUCAAUUUGCUCUUAUUUUG-AGGCCAGGUACAA-UUAUCAUGCACACAUGC AAIY01439786.1/1398-1200 UGGGCAAAAAAAACAUAGCU-UUUUACUGCUU-UGUCCACUUAGG-AGGUAACAGGA-CUGCCAACCUGGCAGUGUGCAAUGACAACAAAUCACCACGAGACGUUUCAUUUAAAAA-UUGGCACUGCUUUUGGGGA-GGUAAGGGAUUGUCAAUUUGCAUUUAUUUUA-AGGCCAGGCACAA-UCAUAA----CACUCCC AAFR03008508.1/39298-39497 ----UUAGGUUGAUGUGGC--UUUUCCUGAUGAUGCCUGCUU-GGUAGGUAAAUUAGGCUGCCAAUCUGGCAGUUUUCAUUGUCAAUAAAUCUAUUCUAGACACUUUAUUUAAAAG-UUGGCACUGGUGU-AGAGGAGGUAAGGGACUGUAAAUUUUCUUUUAUUUAG-AGGCCAGGAAUAA-UCAUAACAAACAUAGAC U09772.1/881-1081 -UGGCAAGGCUGACAUAGC--UUUUACUGAUC-UGUCUGUUU-AGUGAGUGGACAGGA-UGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACUACUAGACAUUUUAUUUAAAAU-CUGGCACUGGCUU-UGGAGAGGUGAGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACACAAACAGGC AF307319.1/293-433 -------------------------------U-UGUCUGCUU-A-UGAAUGGACAGGA-UGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAU-UUGGCACUGGCUU-GGAAGAG-UGANGGAUUGUCAAUUUGUUUUUAUUUUG-AAGCCAGGCAC-------------------- U56440.1/5840-6042 -UGGCAAGGUUGACAUAGC--UUUUACUGAUU-UGUCUGUUUUAGUAGGUAAAUGGGGCUGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCUU-GGCGGAGGUAAGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACAUACACAGGC U56439.1/4333-4533 -UGGCAAGGCUGACAUAGC--UUUUACUGAUC-UGUCUGUUU-AGUGAGUGGACAGGA-UGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACUACUAGACAUUUUAUUUAAAAU-CUGGCACUGGCUU-UGGAGAGGUGAGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACACAAACAGGC AF307310.1/379-495 ------------------------------------------------------------GCCAGUCUGGCAGUUUGCACUGGCAAUAAAUCACCACUAGACAUUUUAUUUUAAAA-UUGGCACUGGCUUGAGGGA-GGUAAAGGAUUGUCAAUUUGCUUUUAUUUUG-AGGCCAGGCAC-------------------- AAPE02013820.1/33832-33630 -GGGCAAGGUUGACCUAGC--UUUUACUGAUU-UGUCUGUUU-AGUAGGUAAAUGGGGCUGCCAGUCUGGCAGUUUGCACUGGCAAUAAAUCACCACGAGACAUUUUAUUUAAAAA-UUGGCACUGGCUUUGGGGGAGGUGAGGGAUUGUCAAUUUGCUUUUAUUUUG-UGGCCAGGCACAA-UCAUAACACACACAGGC AAGW02004834.1/58037-57836 -UGGCAAGGUUCACCUAGC--UUUCACUGAUU-UGUCUGGUU-AGUAGGUAAAUGGGGCUGCCAGUCUGGCAAUUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACCGGCUU-GGAGGAGGUAAGGGAUUGUCAACUCGCUUUUGUUUUG-AGGCCAGACACAG-UCAUAACACACAAAAGC AAGU03011001.1/29250-29050 -GGGCAAGGUUGACAUAGC--UUUUACUGAUU-UGUCUGCUUAGU-AGGUAACGGGA-CUGCCAGUCUGGCAGUUUGUGUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCCUGGGGGA-GGUAAGGAAUUGUCAAUUUGCUUUUAUUUUG-AGGCCAGGCCCAA-UCAUAACACACACAGGC AACN010165493.1/494-294 -GGGCAAGGUUGACAUAGC--UUUUACUGAUU-UGUCUGCUU-AGUAGGUAAAUGGGGCUGCCAGUCUGGCAGUUUGCACUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCUC-GGGGGAGGU-AGGGGUUGUCAAUUUGCUUUUAUGUUG-AGGCCAGGCACAA-UCAUAACACACACAAGC AAQR03097656.1/86881-87080 -UGGCAAGGUGGACAC-GC--UUCUGCUGAUU-UGUCUGCUU-AGUAGGUAAGUGGG-CUGCCAGGCUGGCAGUUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGACCA-GGGGGAGGUAAGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACA-AUCAUAACAUACACAGGC #=GC SS_cons .::::::::::::::::::..:::::::::::.:::::::::.:::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::.:::::::::::::.:::::::::::::::::::::::::::::::::::::.:::::::::::::.::::::::::::::::: #=GC RF .gGGCaAGGuuGAcaUaGc..UuuuaCUGaUu.UGUCUGcUU.aGUAGGUaaaugGGGcUGCCAGUCUGGCAGUuUGCauUGGCAAUAAAUCACcaCuAGACAUUUUAUUUaAAAa.UUGGCaCUGGcuU.gGgGGaGGUaAGGGAUUGUCAAUUUGcUUUUAUUUuG.AGGCCAGGCACAA.UCAUAAcacACAcagGC U10269.1/831-1031 CACCUGGAAAC AAHX01021520.1/88041-87840 CACCUGGAAAC ABDC01349465.1/5059-5260 CACCUGGAAAC ABRO01323638.1/1086-1287 CACCUGGAAAC ABRQ01083001.1/213-413 CACCUGGAAAC ABVD01000942.1/1332-1533 CACCUGGAAAC AAWR02006338.1/126668-126867 CGCCUGGAAAC ABRR01127926.1/4715-4916 CACCUGGAAAC AAFC03109165.1/81244-81044 CACCUGGAAAC ABRN01387294.1/22195-22395 CACCUGGAAAC AAGV020005392.1/620-821 CACCUGGAAAC AAKN02006300.1/15682-15492 CACCUGGAAAC AAQQ01584859.1/1510-1710 CACUUGGAAAC AAYZ01070532.1/7886-8085 CACCUGGAAAC AALT01491474.1/6681-6880 CACCUGGAAAC AAIY01439786.1/1398-1200 CACCUGGGCAC AAFR03008508.1/39298-39497 CACCUGGAAGC U09772.1/881-1081 CACCUGGAAAC AF307319.1/293-433 ----------- U56440.1/5840-6042 CACCUGGAAAC U56439.1/4333-4533 CACCUGGAAAC AF307310.1/379-495 ----------- AAPE02013820.1/33832-33630 CACCUGGAAAC AAGW02004834.1/58037-57836 CACCUGGAAAC AAGU03011001.1/29250-29050 CACCUGGAAAC AACN010165493.1/494-294 CACCUGGAAAC AAQR03097656.1/86881-87080 CACCUGGAAAC #=GC SS_cons ::::::::::: #=GC RF CACCUGGAAAC //