# STOCKHOLM 1.0
#=GF ID Plastid-rpoB
#=GF AC RF04332
#=GF DE Plastid-rpoB 5UTR RNA
#=GF AU Hua J; 0000-0003-0669-5192
#=GF GA 45.0
#=GF NC 44.7
#=GF TC 45.1
#=GF SE Mehta D
#=GF SS Predicted; LocARNA;
#=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 RN [1]
#=GF RM 36575799
#=GF RT Retrograde signaling in plants: A critical review focusing on the GUN
#=GF RT pathway and beyond.
#=GF RA Richter AS, Nagele T, Grimm B, Kaufmann K, Schroda M, Leister D, Kleine T
#=GF RL Plant Commun. 2023;4:100511.
#=GF CC Plastid rpoB is a non-coding RNA (ncRNA) recognised in plastids. It was
#=GF CC found in the 5 prime untranslated region (5UTR) of a chloroplast-encoded
#=GF CC RNA polymerase subunit (rpoB) in plastids, suggesting a posible
#=GF CC cis-regulatory function.
#=GF WK Chloroplast_DNA
#=GF SQ 49

NC_004993.1/27800-27751 CUAUACUGUUCUUGAUUAUUCUGU------CUUUAUCUCAU-UCAU-AGAGAACGGAU
NC_042744.1/27803-27755 -UAGACUGUUCUUGAUUAUUCUGU------CUUUAUCUCAU-UCAU-AGAGAACGGAU
NC_036002.1/27286-27238 -UAUACUGUUCCUGAUUAUUCUGU------CUUUAUCUCAU-UCAU-AGAGAACGGAU
NC_039623.1/28451-28403 CUAUACUGUUCCUGAUUAUUCUGU------CUUUAUCUCAU-UCAU-AGAGAACAGA-
NC_039621.1/28508-28460 CUAUACUGUUUCUGAUUAUUCUGU------CUUUAUCUCAU-UCAU-AGAGAACAGA-
NC_030504.1/28545-28496 CUAUACUGUUCCUAAUUAUUCUGU------CUCUAUCUCAU-UCAU-AGAGAACGGAU
NC_026565.1/27969-27921 CUAUACUGUUUCUGAUUAUUCUGU------CUUUAUCUCAU-UUAU-AGAGAACAGA-
NC_023235.1/28454-28406 -UAGACUGUUCCUAAUUAUUUUGU------CUUUAUCUCAU-UCAU-AGAGAACGGAU
NC_029969.1/27446-27397 CUAUACUGCUCCUGAUUAUUCUGU------CUUUAUCUCAU-UCAU-AAAGAGCGGAU
NC_039933.1/28695-28647 -UGUACUGUUCCUGAUUAUUAUGU------UUUUAUCUCAU-UCAU-AGAGAAUGGAU
NC_029431.1/28787-28739 CUAUAUUGUUCCUGGUUAUUUUGU------CUUUAUCUCAU-UCAU-AGAGAACAGA-
NC_028549.1/26607-26559 CUAUGCUGUUCCUGAUUAUUCUGU------UUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_029713.1/26981-26933 CUAUGCUGUUCCUGAUUCUUCUGU------UUUUAUCUCAU-UCAU-AGAGAACAGA-
NC_029974.1/27379-27331 CUAUACUGCUCCUGAUUAUUCUGU------CUUUAUCUCAU-UCAU-AAAGAGCAGA-
NC_042164.1/28389-28340 CUAUGCUGUUCCCGAUUAUUCUGU------CUUUCUAUCAU-UCAU-AGAGAACGGAU
NC_035831.2/28138-28091 -UAUGUUGUUCCUGAUUCUUCUGU------UUUUAUCUCAU-UCAU-AGAGAACAGA-
NC_007499.1/27974-27926 CUAUGCUGUUCCUGAUUUUUCUGU------UUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_029433.1/28182-28133 CUAUACUGUUCCUGAUUAUUCUGU------CUUUAUCUUAU-UCAUUAGAGAACAGA-
NC_029712.1/26925-26879 --CUGCUGUUCCUGAUUCUUCUGU------UUUUAUCUCAU-UCAU-AGAGAACAGA-
NC_029949.1/28049-28001 CUAUACUGCUCCUGAUUAUUCUGU------UUUUAUCUCAU-UCAU-AAAGAGCAGA-
NC_036154.1/27411-27363 CUAUACUGCUCCCGAUUAUUCUAU------CUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_036373.1/27689-27641 CUAUGCUGUUCCUGAUUCUUCUGU------UUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_044644.1/26276-26228 CUAUGCUGUUCUCGAUUCUUCUGU------UUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_041442.1/28950-28901 CUAUGCUGUUCCCGAUUAUUCUGU------CUUUCUAUCAU-UCAU-AGAGAGCGGAU
NC_030706.1/27409-27361 CUAUGCUGUUCCUGAUUCUUCUGU------UUUUAUCUAAU-UCAU-AGAGAACAGA-
NC_030166.1/42299-42348 CUAUGCUGUUCCCAAUUAUUCUGU------CUUUCUCUCAU-UCAU-AGAGAGCGGAU
NC_030704.1/27375-27327 CUAUGCUGUUCCUGAUUCUUCUAU------UUUUAUCUCAU-UCAU-AGAGAACAGA-
NC_030711.1/26921-26874 -UAUGCUGUUCCUGAUUCUUCUGU------UUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_023356.1/8211-8259   CUAUAUUGCUCCUGAGCAUUCUGU------CUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_035833.1/27730-27683 -UACGCUGUUCCUGAUUCUUCUGU------UUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_026775.1/26383-26335 CUAUGCUGUUCUCGAUUCUUCUGC------UUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_044626.1/25961-25913 CUAUGCUGUUCUCGAUUCUUCCGU------UUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_041309.1/61936-61888 CUAUGCUGUUCCUGAUUCUUCUGU------UUUUGUCUCAU-UCAU-AGAGAGCAGA-
NC_026777.1/26769-26716 -UAUGCUGUUCCUGAUUAUUCUGUUUUUGUUUUUAUCUCAU-UCAU-AGAGAACAGA-
NC_041189.1/26206-26160 --AGGCUGUUCCUGAUUCUUCUGU------UUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_030710.1/26957-26910 -UAUGCUGUUCCUAAUUCUUCUGU------UUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_026541.1/26959-26906 -UAUGCUGUUCCUGAUUCUUCUGUUUUUGUUUUUAUCUCAU-UCAU-AGAGAACAGA-
NC_026779.1/28746-28698 CUAUGCUGUUCCUGAUUCUUCUAU------UUUUGUCUCAU-UCAU-AGAGAGCAGA-
NC_037212.1/26347-26299 CUAUGCUGUUCCUUAUUCUUCUGU------UUUUCUCUCAU-UCAU-AGAGAGCAGA-
NC_035829.1/27450-27403 CUAUGCUGUUCCUGAUUCUUCUGU-------UUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_043905.1/26672-26619 -UAUGCUGUUCCUGAUUCUUCUGUUUUUGUUUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_033895.1/26462-26414 CUAUGCUGUUCCUUAUUCUUUUAU------UUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_026773.1/26930-26882 CUAUGCUGUUCCUUAUUCUUUUCU------UUUUAUCUCAU-UCAU-AGAGAGCAGA-
NC_016471.1/10888-10845 -----CUGUUUCUGAUUCUUCUGU------UUUUAUCUCAU-UCAU-AAAGAGCAGA-
NC_039812.1/1687-1734   CUAUGCUGUUCCUUAUUAUUCUGU-------UUUAUCGCAU-UCAU-AGAGAGCAGA-
NC_035832.1/26503-26463 ---UGCUGU-----UUUCUUCUGU------UUUUAUCUUAU-UCAU-AGAGGGCAGA-
NC_025659.1/26889-26844 ---UGCUGUUCCAGAUUCUUCUUU-------UUUAUCUCAUUUCAU-AGAGAGCAGA-
NC_025662.1/26761-26717 ----GCUGUUCCAGACUCUUCUU-------UUUUAUCUCAUUUCAU-AGAGAGCAGA-
NC_040981.1/19446-19402 ----GCUGUUCCAGACUCCUCUGU------U-UUAUCUCAUUUCAU-AGAGAGCAGA-
#=GC SS_cons            :::::<<<<<<_____________......___________.____.___>>>>>>:.
#=GC RF                 CUAUGCUGuUCCUGAUUaUUCUGU......UUUUAUCUCAU.UCAU.AGAGAgCAGA.
//
