# STOCKHOLM 1.0
#=GF ID HBV_PRE_1151-1410
#=GF AC RF02816
#=GF DE Hepatitis B virus post-transcriptional regulatory element 1151-1410
#=GF AU Argasinska J; 0000-0003-2678-2824
#=GF GA 82.0
#=GF NC 68.8
#=GF TC 82.6
#=GF SE Argasinska J
#=GF SS Predicted; RNAfold
#=GF TP Cis-reg;
#=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 DR SO; 0005836; regulatory_region;
#=GF DR GO; 0051168; nuclear export;
#=GF DR GO; 0043484; regulation of RNA splicing;
#=GF RN [1]
#=GF RM 26514143
#=GF RT A conserved RNA structural element within the hepatitis B virus
#=GF RT post-transcriptional regulatory element enhance nuclear export of
#=GF RT intronless transcripts and repress the splicing mechanism.
#=GF RA Visootsat A, Payungporn S, T-Thienprasert NP
#=GF RL Mol Biol Rep. 2015;42:1603-1614.
#=GF CC Part of 500 base pair long HBV PRE, contains nucleotides 1151-1410.
#=GF CC Enhances nuclear export of intronless transcripts and represses the
#=GF CC splicing mechanism to a comparable degree to that of the full-length PRE.
#=GF CC It was proposed to be the core HBV PRE element. contains 3 known
#=GF CC regulatory elements: PRE SL-alpha (nucleotides 1292-1321), human La
#=GF CC protein binding site (nucleotide 1275-1291) and SRE-1 (nucleotides
#=GF CC 1252-1348).
#=GF WK Hepatitis_B_virus_PRE_1151-1410
#=GF SQ 2

KC836877.1/1151-1409 UUGCUCGGCAACGGCCUGGUCUGUGCCAAGUGUUUGCUGACGCAACCCCCACUGGCUGGGGCUUGGCCAUAGGCCAUCAGCGCAUGCGUGGAACCUUUGUGGCUCCUCUGCCGAUCCAUACUGCGGAACUCCUAGCCGCUUGUUUUGCUCGCAGCCGGUCUGGAGCAAAGCUCAUCGGAACUGACAAUUCUGUCGUCCUC
M57663.2/1151-1409   UUGCCCGGCAACGGCCUGGUCUGUGCCAAGUGUUUGCUGACGCAACCCCCACUGGCUGGGGCUUGGCCAUCGGCCAUCAGCGCAUGCGUGAAACCUUUGUGGCUCCUCUGCCGAUCCAUACUGCAGAACUCCUAGCCGCUUGUUUUGCUCGCAGCCGGUCUGGAGCAAAACUCAUCGGGACUGACAAUUCUGUCGUCCUU
#=GC SS_cons         <<<<<<<<<<<--<<-<<<<____>>>>->>-->>>>>>>->>>>:::<<<<--<<--<-<<<<<<<<___>>>>>-->>>->-->>>>>>:::::::::<<<______>>>((((((----((((-((-((((((-(((,<<<<<<<<<-<<<_____>>>>>>>>>>>>,,,,,<<<--<<<<<____>>>>>>>>,,
#=GC RF              uuGCcCgGCaaCGgCCuGGcCUGUgCCaAGcGUuuGCcGgCGCaaCCCcCaCUGGCUGGGGCuuGGCCAUaGGCCaUCaGCGCAUGCGuGgAACCUUUGUGGCUCCUCUGCCgauCcaUACUGCgGAaCUCCuaGCCGCcUGcuuuGCuCGCaGCCGGUCuGGaGCaaagCUCAUCGGgACcGaCaAUUCuGuCgcCCUu

KC836877.1/1151-1409 UCGCGGAAAUAUACAUCGUUUCCAUGGCUGCUAGGCUGUACUGCCAACUGGAUCCUUCG
M57663.2/1151-1409   UCUCAGAAAUAUACAUCCUUUCCAUAGCUGCUAGGUUGUACUGCCAACUAGAUUCUUCG
#=GC SS_cons         ,,,,<<<<<<_______>>>>>>,,)))-))))))--))-))))----)))))):::::
#=GC RF              UCuCgGaaacAUACAUCguuuCcAUgGCUGCuaGGuUGuACcGCCAACugGaucCUUCG
//
