# STOCKHOLM 1.0
#=GF ID AMV_RNA1_SL
#=GF AC RF00196
#=GF DE Alfalfa mosaic virus RNA 1 5' UTR stem-loop
#=GF AU Moxon SJ; 0000-0003-4644-1816
#=GF GA 60.0
#=GF NC 45.4
#=GF TC 62.7
#=GF SE PMID:14512577
#=GF SS Published; PMID:14512577
#=GF TP Cis-reg;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 31.65 -Z 2958934 CM SEQDB
#=GF DR GO; 0039689; negative stranded viral RNA replication;
#=GF DR SO; 0000837; UTR_region;
#=GF RN [1]
#=GF RM 14512577
#=GF RT The 5' untranslated region of alfalfa mosaic virus RNA 1 is involved in
#=GF RT negative-strand RNA synthesis.
#=GF RA Vlot AC, Bol JF
#=GF RL J Virol 2003;77:11284-11289.
#=GF CC This family represents a putative stem-loop structure found in the 5' UTR
#=GF CC in RNA 1 of alfalfa mosaic virus. RNA 1 is responsible for encoding the
#=GF CC viral replicase protein P1. This family is required for negative strand
#=GF CC RNA synthesis in in the alfalfa mosaic virus and may also be involved in
#=GF CC positive strand RNA synthesis [1].
#=GF WK Alfalfa_mosaic_virus_RNA_1_5'_UTR_stem-loop
#=GF SQ 6

X00819.1/1-35 GUUUUCAUCUUACACACGCUUGUGCAAGAUAGUUA
M35975.1/2-36 GUUUUUAUCUUACACACGCUUGUGCAAGAUAGUUA
L00163.1/1-35 GUUUUUAUCUUACACACGCUUGUGUAAGAUAGUUA
M28375.1/1-35 GUUUUUAUCUUAUACACGCUUGUGUAAGAUAGUUA
V00044.1/1-35 GUUUUUAUCUUACACACGCUUGUGUAAGAUAGUUA
M36391.1/2-36 GUUUUCAUCUUACACACGCUUGUGCAAGAUAGUUA
#=GC SS_cons  ::::<<<<<<<<<<<<____>>>>>>>>>>>>:::
#=GC RF       GUUUUUAUCUUaCACACGCUUGUGuAAGAUAGUUA
//
