# STOCKHOLM 1.0
#=GF ID asponA
#=GF AC RF02812
#=GF DE anti ponA RNA
#=GF AU Argasinska J; 0000-0003-2678-2824
#=GF GA 113.0
#=GF NC 86.3
#=GF TC 115.6
#=GF SE Argasinska J
#=GF SS Predicted; RNAfold
#=GF TP Gene; antisense;
#=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; 0000370; small_regulatory_ncRNA;
#=GF DR GO; 0046677; response to antibiotic;
#=GF DR SO; 0000644; antisense_RNA;
#=GF RN [1]
#=GF RM 25213728
#=GF RT Expression of antisense small RNAs in response to stress in Pseudomonas
#=GF RT aeruginosa.
#=GF RA Gomez-Lozano M, Marvig RL, Tulstrup MV, Molin S
#=GF RL BMC Genomics. 2014;15:783.
#=GF RN [2]
#=GF RM 23028334
#=GF RT The single-nucleotide resolution transcriptome of Pseudomonas aeruginosa
#=GF RT grown in body temperature.
#=GF RA Wurtzel O, Yoder-Himes DR, Han K, Dandekar AA, Edelheit S, Greenberg EP,
#=GF RA Sorek R, Lory S
#=GF RL PLoS Pathog. 2012;8:e1002945.
#=GF RN [3]
#=GF RM 22590564
#=GF RT Comparative profiling of Pseudomonas aeruginosa strains reveals
#=GF RT differential expression of novel unique and conserved small RNAs.
#=GF RA Ferrara S, Brugnoli M, De Bonis A, Righetti F, Delvillani F, Deho G,
#=GF RA Horner D, Briani F, Bertoni G
#=GF RL PLoS One. 2012;7:e36553.
#=GF CC Transcribed antisense to the penicillin-binding protein 1A gene called
#=GF CC ponA. It was identified by RNAseq and the expression was validated by 5'
#=GF CC and 3' RACE experiments. AsponA expression was up or down regulated under
#=GF CC different antibiotic stress. Due to its location it may be able to prevent
#=GF CC the transcription or translation of the opposite gene.[1] Study by Wurtzel
#=GF CC et al. and Ferrara et al. also detected its expression.
#=GF WK AsponA_antisense_RNA
#=GF SQ 3

AE004091.2/5681167-5680874 GAAAUUGUCGUCCUCGGCGGACAGCAGGGCAUGGAUGAAGUCCUGCGGGAUGUCGGCGAAGCGGAUCGGCGUCCGGCGCAUCUCGCCGAACUCGGAGAUCAGCUUGCCGUCCUCGCUGUAGACCUUGAGGGGGAUCUGCAGCUGGACGUUACGCAGAGCUUCCACCGAGGGCAGGCUGGGACUCAGAUAGAGAUAGGCGC
HG322950.1/5644547-5644253 GAAAUUAUCGUCCUCGGCGGACAACAGGGCGUGAAUGAAGUCUGGGGGAAUGUCCGCGAAGCGAAUGGGCGUCCGGCGCAUCUCACCGAACUCUGCUAUCAAUUUGUUAUCACUGCUGUAAACGCGCAGCGGGAUCUGCAGCUGCACGUUACGCAGGGCGUCUACCGAGGGCAGGUUGGGACUGAGGUAGAGAUAAGCGC
CP004143.1/5076814-5076520 GAAGUUGUCAUCCUCGGCCGAUAACAGUGCGUGGGUGAAGUCUUGGGGGAUUUCAGCAAAGCGAAUCGGCGUACGGCGCAUCUCGCCAAACUCUGCUAUCAAUCUGUUAUCACUGCUGUACACGCGCAACGGCAUCUGCAAACGCACGUUGCGCAAGGCCUCCACGGACGGGAGGUUUGGGCUGAGGUAGAGGUAGGCGC
#=GC SS_cons               :::::::::((((((((-(((,,<<<<<<<_________>>>>>>><<<<<<-<<-<<--<<______>>--->>->>>>>>>>,<<<____>>>,,,,,<<<<<<<<<<<<--<<<<<<<<<<<<___>>>>->>>>>>>>->>>>>---->>>->>>>)))-)))))))):::((((((-((-((---------((((
#=GC RF                    GAAaUUgUCguCcuCgGCgGacAgCagggCgUGgaUGAAGuccuGcGggaugUCgGCgAAGCGaAUcGGCGUccGGcGcaucuCgCcgAACUcgGcuAUCggccuGccgucccugcuGuagacccgcAgcgggAucugCagcuggacgUUaCgCagggccuCcACcGagGgcAGGcugGgaCucAggUAGAGaUAgGCGC

AE004091.2/5681167-5680874 CGCUGAAACUGAGCAGCACUCCACAAAUCAGGGUGACGCAAGUCCACCACAGGAACUUCAGCAGGCGCAUGGGUAGAUUC-GGAUUUCCAGGAAA
HG322950.1/5644547-5644253 CGCUUAAACUGAGCAGCACUCCACAAAAUAUGGCGACGCAAGUCCACCACAGAAACUUCAGCAGGCGCAUUGGAAGGUCUUGGAUUUCCAGGGAA
CP004143.1/5076814-5076520 CGCUGAAACUGAGCAGCAAUCCACAGAUUAUGGUGACGCAGGUCCACCACAGAAACUUCAGCAGGCGCAUUGGAAGGUCUUGGAUUUCCAGAGAA
#=GC SS_cons               (((((((,,,,,<<--<<<-<<________>>>>>-->>,,,<<<______>>>,,))))))-)))))----------))--))-))))))::::
#=GC RF                    CGCugaaACUGAGCAGCacUCcACAaAuuAgGguGACGCAaGucCACCACAGgaACuucaGCAGGCGCAUuGGaAGgUccUGgaUuuCcagggAA
//
