# STOCKHOLM 1.0
#=GF ID c-di-GMP-I-UAU
#=GF AC RF03168
#=GF DE c-di-GMP-I-UAU riboswitch aptamer
#=GF AU Weinberg Z; 0000-0002-6681-3624
#=GF GA 65.9
#=GF NC 65.8
#=GF TC 65.9
#=GF SE Published; PMID:28265071
#=GF SS Published; PMID:28265071
#=GF TP Cis-reg; riboswitch;
#=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 CL CL00126
#=GF DR GO; 0035438; cyclic-di-GMP binding;
#=GF DR SO; 0000035; riboswitch;
#=GF RN [1]
#=GF RM 28265071
#=GF RT Bioinformatic analysis of riboswitch structures uncovers variant classes
#=GF RT with altered ligand specificity.
#=GF RA Weinberg Z, Nelson JW, Lunse CE, Sherlock ME, Breaker RR
#=GF RL Proc Natl Acad Sci U S A. 2017;114:E2077.
#=GF CC c-di-GMP-I-GGC is a variant of c-di-GMP-I riboswitch RF01051, that
#=GF CC includes CORESEQ UAU
#=GF WK Cyclic_di-GMP-I_riboswitch
#=GF SQ 6

URS0000D6922B_338966/1-76 CACCGACGGUGCACAGCACGGGUAACCGUGUGUCGCAAAACUAC-C-AUCCC--GAAGA-----GG---GAUAGAGGGGUUGUCGAAG
URS0000D6AD63_859657/1-81 UGUUGCAUUUGCAAAGCUGGAGUGAUCCGGCGACGCAAAGCCAGGGGGACUUCCGUAUC---GGAA---GUCAGCC-AGUUGUCCGCC
URS0000D6647A_12908/1-77  UUCUAUAAGUGCAAAAUCAGGGCAACUUGAUGACGCAAAGCUAC-GGCUUCUG-AUA------CAG---GGUCGCCGGGGUGUCAGGG
URS0000D6A728_12908/1-85  CUAGAAAAAUACAAACUAAAGGAAACUUUAGGUCGUAAAAGCAC-CUGUUGACCGCUAAC--AGUCUAUGGCAGCGGGGUUAUUAAGG
URS0000D6BE6B_12908/1-80  UAAGAUAAAUCCACACCCGUCGUGAGGCGAGUCCGGAAAGCCAC-GGGUCUU--AAGAUUGA--AA---GAUAGCCGGGUUGUCAACA
URS0000D6BBBE_12908/1-79  CAAGAAAAAUCCAAACCUGCUGUAAAGCAGGGACGGAAAGCCAC-GGGUUUCUUUUGU----AAGA---AGCAGCC-GGUUAUCAAUA
#=GC SS_cons              ::::::::::<<---<<<<<<____>>>>>>--->>::<<<<-<.<<<<<<<<<_____...>>>>...>>>-->>>>>>>:::::::
#=GC RF                   uaauAaAaaUgCAAAcccgggGUAAcccgggGaCGcAAAgCcAC.gGgucccccguaaa...gggg...gacAGCcGgGuUGUCaAag
#=GC CORE                 .........X..........................X.............................................X.....
//
