# STOCKHOLM 1.0
#=GF ID Diantho_3_UTR
#=GF AC RF02456
#=GF DE Dianthovirus RNA2 3'UTR stem loops
#=GF AU Eberhardt R; 0000-0001-6152-1369
#=GF GA 100.0
#=GF NC 39.6
#=GF TC 244.6
#=GF SE Eberhardt R
#=GF SS Predicted; PMID:20561661
#=GF TP Cis-reg;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 23.41 -Z 2958934 CM SEQDB
#=GF DR SO; 0005836; regulatory_region;
#=GF RN [1]
#=GF RM 20561661
#=GF RT A Y-shaped RNA structure in the 3' untranslated region together with the
#=GF RT trans-activator and core promoter of Red clover necrotic mosaic virus RNA2
#=GF RT is required for its negative-strand RNA synthesis.
#=GF RA An M, Iwakawa HO, Mine A, Kaido M, Mise K, Okuno T
#=GF RL Virology. 2010;405:100-109.
#=GF WK Red_clover_necrotic_mosaic_virus_translation_enhancer_elements
#=GF SQ 2

X08021.1/1247-1448 CUAUCGUAGUGUGUGCGAUAGCAUUGCGUUAGGGGUUACUUUC-GAGAGAUU-UGGAGGGGUUGGUCCCUCCG-GUGAGAGAAGAAAACUCAUCCCAAACAAAAAACAGGGUUUCUGAUAACCGGUGCGACAAUAUGCCCUUCCAAGGCACUGACCGGCACGGAGAAAAACUAUAAUGCCAUGUCGUAUAACGGCUAGGC
S46028.1/1247-1448 UAGACAGGGUGUUUGCGAUAGCAUCCUGUUCUAGGUUGGUUUCUUAGCGAUUAUGGAGGGGUUGGACCCUCCUGGUGUGAGAAGGAAACACAUCA-AAACAAAAAACAGGGUUC-U-GUAACCGGUGCGACAAUAUGCCCUUCCAAGGCACUGACCGGCACGGAUAAAACUUUAUUUGCCUAGUCGUAUAACGGCUAGGC
#=GC SS_cons       ::::<<<<<<<<________>>>>>>>>::::::::::::::::::::::::::<<<<<<<____>>>>>>><-<<<<<_________>>>>->>:::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::<<<<<<<<<<<___>>>>>>>>>>
#=GC RF            uaaaCgggguGuuUGCGAUAgCaucccGUUauaGGUUagUUUCUuAGaGAUUAUGGaGGGgUUGGcCCCuCCgGGuGuGAGAAGaAAACaCaUCccAAACAAAAAACAGGGUUucUGaUAACCGGUGCGACAAUAUGCCCUUCCAAGGCACUGACCGGCACGGAuAAAAauUaaaauGCCuaGuCGuAUAaCGgCuaGGC

X08021.1/1247-1448 ACCCC
S46028.1/1247-1448 ACCCC
#=GC SS_cons       >::::
#=GC RF            aCCCC
//
