ID JN053266; SV 1; linear; genomic RNA; STD; VRL; 7718 BP. XX AC JN053266; XX DT 21-JUN-2011 (Rel. 109, Created) DT 14-SEP-2011 (Rel. 110, Last updated, Version 2) XX DE Blackberry virus E isolate BB_Ellis-1, complete genome. XX KW . XX OS Blackberry virus E OC Viruses; Riboviria; Tymovirales; Alphaflexiviridae; Allexivirus. XX RN [1] RP 1-7718 RX DOI; 10.1007/s00705-011-1015-y. RX PUBMED; 21656298. RA Sabanadzovic S., Abou Ghanem-Sabanadzovic N., Tzanetakis I.E.; RT "Blackberry virus E: an unusual flexivirus"; RL Arch. Virol. 156(9):1665-1669(2011). XX RN [2] RP 1-7718 RA Sabanadzovic S.; RT ; RL Submitted (03-JUN-2011) to the INSDC. RL Biochemistry, Molecular Biology, Entomology and Plant Pathology, RL Mississippi State University, 100 Twelve Lane Stop 9775, Mississippi State, RL MS 39762, USA XX DR MD5; 16f3863e8920dab932e7a4bf1e0aa4f0. XX FH Key Location/Qualifiers FH FT source 1..7718 FT /organism="Blackberry virus E" FT /host="cultivated blackberry" FT /isolate="BB_Ellis-1" FT /mol_type="genomic RNA" FT /country="USA:Mississippi" FT /collected_by="Sead Sabanadzovic" FT /collection_date="2008" FT /db_xref="taxon:1043184" FT CDS 98..4597 FT /codon_start=1 FT /product="replication-associated polyprotein" FT /note="contains putative MTR, HEL and RdRp motifs" FT /db_xref="GOA:F8VAF9" FT /db_xref="InterPro:IPR001788" FT /db_xref="InterPro:IPR002588" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:F8VAF9" FT /protein_id="AEI17897.1" FT /translation="MATQVRRLLDQVSDPSTKAAYSELCFSRAKDAAAKAATLAPFAVS FT DAEAVTLERLGITTSPFATTSHTHAADKILENDCLALIGHYLPKDPVTFIQLKKSKLHL FT LHRGPDQDTLTNYCHEPKDVLRYGITNPHSCPKIQTQYAVLADTLHFMSTMQLAVLFNK FT NPTLDRLFATLVLPIEALHRLPSLFPEVYRLEYYENHFAYMPGGHGGGAYVHSYATLKW FT LSTGQVGTHGPGLISFGITDYLSIEKIETKAAHHVMLIQRRRARVPWPLPPVWVFQASD FT YVRLPHIFYPPEANVRNTYQDVFVKRLQAYCFSVKAVSLRDIFAKIRQVVETQELRRYS FT MADLIRLANFLLFTTAMQQVCDYQSFLTKGFLARLSARIQARIRSLTEGLMGQSSYAAL FT LSVADTIPVPFTTKPISRPAQGEDWYHDPDEEGDEPEPENDSSTPSLEDLDLLAELGEN FT PKATAPGTHENKTSNDPALERKDIEVPSSASPKPTRQPLLEHVISSEQDQDLTLDELEA FT MLKAKPPSTQDKGTVGHQMSDRVYIPHGEGTSSAPHNGTPEHGREHAGSDEHIQFGTIG FT EDDLLEDLLTPTPTSEVGTTNSTAQVQAPRAGPDPKANAEAHTLPKRTVDILRLHGFTN FT LNQQFSDVGAIQPVIYNTNAANLKLAPPPLSKLNKVLDTMAQKLQRRFYSYVLDNKRAT FT AYMSDVKNNLTGLVLPKLDRNILSAWVSLAECSKRTVSVLVIHGAGGAGKSRAIQEMLR FT NHGEVADNTNVVVPTVNLVLDWKSKLPEVDPKHFMTFEKACEREGKEVVIFDDYGKLPA FT GYIDAYLSIKPTVETVILTGDQRQSVHHATNREAQTANLKTNVQHFSRYCDYYVNATHR FT QPQRLANPIQVHAERKTGGAVHRANLIPDTATVLVPSFTTQQSLNGLGRRALAYSGCQG FT LTLPHVTIVLDNDTPLCSNEVLYTAFSRAPESITFVNTHSDHPDFLAKLDSTPYLKTLL FT SGVREDEQAGKDDPLPKPEVREPMIKTHLPVANLETYLEDKVEQMEDKDTRELWDGKEK FT TNLMQTQDPVVQLFPHQQAKDEALFKLTIEQRIRTATPAENSKSVQHTLQAGDLLFEAY FT SDFMRVPKEPQTFNPDLWEHCKQLALRTYVSKPRNNLEQGKTRQDPDFPENAIALFNKS FT QWVKKLEKVGFKFKAGQTISAFKQSTVLLTTTMALYLRKKRLEHQPQNVFIMCEKTPAE FT FNDFVLNRWDFKTPSYTSDYTQYDQSQDAAFLNFELRKARHLGVPEEVLDFYKFIKIHA FT KTFVGNLAIMRLSGEGPTFDANTECNIAYDALRFKLAPTVNACYAGDDLVRDQVCDERP FT GWQLSKHLFTLQAKPLTTTTPDFCGWRLTPHGIVKSPIQLYQSLQLALRLNKMEEVKRS FT YAIDYSYAYKLGDKLHEVFNEQELDAHQLTTRIFVKKGLKIPETGDHLPQFNVVSDRLI FT TNPHYKEMHDSTSDRTLLSEFEIQEDYVPDYIPRIIQI" FT CDS 4624..5364 FT /codon_start=1 FT /product="TGB-1" FT /db_xref="GOA:F8VAG0" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:F8VAG0" FT /protein_id="AEI17898.1" FT /translation="MFCLNLKMKLNELDFLLTSQGFERTNYPLSFPLVIHGVPGCGKST FT LIRTLLVDINTAARTCGTPYGATLQHPGVLAPRDHPIAPSIDRRILDEYQLADTRTIAD FT FNVLFGDPYQGSFRLSPHYTKSLSHRVPKPVCEFLRTRGFDIAGERSGRITTANPYSPE FT LNSTDWLKHTILHLGPASAALTHSHAICSRSSAEVQGLEFENTTVVYHSSEKTQTVPFY FT VCCTRASQSLTLTSDEFHEFHTSA" FT CDS 5342..5656 FT /codon_start=1 FT /product="TGB-2" FT /db_xref="GOA:F8VAG1" FT /db_xref="InterPro:IPR001896" FT /db_xref="UniProtKB/TrEMBL:F8VAG1" FT /protein_id="AEI17899.1" FT /translation="MSFTPPPDFSKVYLAAVAGMCATLAIHIQISSRRPHVGDNIHHLP FT HGGHYQDGNKRIIYAGSHYSNQLQTGDHWAAILVAVLILAILVSERCLRPSNRSCPHHH FT " FT misc_feature 5451..5786 FT /note="similar to TGB-3; lacks AUG codon; might adopt FT alternative initiation strategy" FT CDS 5767..6837 FT /codon_start=1 FT /product="serine-rich p40 protein" FT /db_xref="InterPro:IPR008398" FT /db_xref="UniProtKB/TrEMBL:F8VAG2" FT /protein_id="AEI17900.1" FT /translation="MAPLSVDFFNQAHTYVVQLLERIHNNTIVPMGRTVNRIGGELDQG FT LRDINAKLDVITSQTASAPATTVDDARQIPIEGPASPTLTGNPLIQQTPSATRFFSDSN FT AVLSETQRITRILPSNTFPMQPSTLPTDELFGQLHALHQNLLQWSIDIDNRVQQLASSV FT NAKLDAVTFNSANQVSTATLNRLLEELHANMATSQRTGEAAQTMLEHLADIQRRLPSTA FT PSDALQQLIQLLSTNRPVEETTPTATPHSELPALNPVHNALRCRTYGSIEFNGQTFKRP FT IDFVGRPPSTTLHLRLDVRRAADHTAVHFTLHDLDRVLLEQVIQTPHQLQHLPDDALFL FT INLHCPRFTYRREAGC" FT CDS 6895..7608 FT /codon_start=1 FT /product="coat protein" FT /db_xref="GOA:F8VAG3" FT /db_xref="InterPro:IPR000052" FT /db_xref="UniProtKB/TrEMBL:F8VAG3" FT /protein_id="AEI17901.1" FT /translation="MPDTPANPPANQAPNPVNAPNPPPPPPRNPASGGSSANPLIPADD FT ELATLGTTVQANKVATQDAVSAVLAELQQGFPSATAIDLVSLAWACYHNGSSRYVTLEG FT SSAHGIPLASIKDVVENHCTLRQFCMYYAKLCYNKGRSDKIPPANWAAKGFKAESMYAA FT FDFFNGVLNEAVPKPRTGMKFVPTEAEKAAHAVNAIMAITESRQQANQFSNRGNMLAMQ FT QIRTPAPPPLITFDN" XX SQ Sequence 7718 BP; 2064 A; 2411 C; 1704 G; 1539 T; 0 other; gaaaactcca caacacaaca cgaacgcaca cggcacgacc ctagtttgat ttctgtgata 60 aggaaactca gcaaagccct gaacacagca acatactatg gctacccaag tgcgaagact 120 cctcgaccaa gtctccgacc catctacaaa ggcagcttat tccgagctat gtttctccag 180 agctaaggac gctgcagcta aggctgccac cctagcaccc ttcgctgtct cagatgcaga 240 ggcagttacc ctggagaggc tcggaatcac tacctcccct ttcgccacca catcccacac 300 tcatgcagca gacaaaatac tggagaatga ttgtctagcc ttaatcggcc actacttacc 360 caaggacccc gtgactttca ttcagctcaa gaagtctaag ctgcatctac tacatagggg 420 tcccgaccaa gacacgctca ccaattactg ccacgagcct aaagacgtgt tacggtacgg 480 gatcacgaat ccacactctt gcccaaaaat ccaaacccag tatgccgtac tagccgacac 540 gctacacttc atgtccacca tgcagcttgc tgtgttattc aataaaaatc ccaccttgga 600 cagattattt gcaacgctgg tactgcccat tgaggccctc cacagacttc cctctctatt 660 cccggaagtc taccgcctgg agtactacga aaatcatttt gcatacatgc caggcggcca 720 cggggggggg gcctacgtcc actcctacgc cacactcaag tggctgtcta ctgggcaggt 780 cggcacccat ggtccggggc taatatcatt tggcatcacg gactacctga gcatagagaa 840 aatagaaacc aaagcggcac accacgtgat gctcatccaa cgccgccgtg ctcgagtacc 900 atggccccta cccccagtgt gggtcttcca ggcttctgac tacgtacgcc ttccacacat 960 attctacccc ccggaagcca atgtgcgcaa cacgtatcaa gacgtctttg ttaagaggct 1020 tcaagcgtac tgcttctccg tcaaagccgt ctcacttaga gacatatttg ccaagatacg 1080 ccaggtggtg gagacccaag agctacgtag atattccatg gcagacctca tcaggctagc 1140 taacttccta ctttttacca ccgccatgca gcaggtctgc gattaccagt ccttcctgac 1200 taagggcttt ctagctaggt taagtgcaag aatccaagct cgcatcaggt ccctcaccga 1260 gggtctcatg ggacaatctt cttacgccgc attgttgagc gtggcggaca caatcccagt 1320 gccgttcacc accaagccca tttcacgacc tgcccaaggc gaagactggt atcatgatcc 1380 agatgaggag ggagatgagc ctgaaccaga gaatgattcc agcaccccat cacttgagga 1440 cctggatctc cttgctgaac ttggggaaaa tccgaaggcc acagctcccg gaacgcacga 1500 gaacaagacc agcaatgatc cagcacttga acgcaaagac attgaggttc cctccagtgc 1560 cagcccaaag ccaactcggc agcccctact ggaacatgta atcagctccg aacaagatca 1620 agacctgacc ctggacgagc tagaagctat gttgaaggca aagcccccaa gcacacaaga 1680 caagggcact gttggccacc aaatgtctga cagggtctac ataccacatg gagaggggac 1740 gagcagtgcg cctcacaacg gaacccctga gcacgggagg gagcacgcag ggtctgacga 1800 gcatatccaa tttggcacca ttggggagga tgacctccta gaggacttgc taaccccaac 1860 acctaccagc gaggtgggca ctacaaactc gacggcgcaa gttcaagctc cacgtgccgg 1920 acccgaccca aaggccaacg ccgaggcgca caccctgcct aaacgcacgg ttgacatact 1980 cagactccat gggttcacta acctcaacca gcaattttcc gatgttggtg ccattcagcc 2040 tgttatttac aacaccaacg ccgccaacct caagctggcc ccacccccac tatccaagct 2100 caacaaggtg ttggatacca tggctcaaaa gctacagcga aggttctatt cgtacgtcct 2160 agacaacaaa agagcaaccg cctacatgtc tgacgtcaag aataacctca ctggactagt 2220 tctgcccaag ctcgatcgga acatattgtc ggcatgggtt tcactagctg aatgttcaaa 2280 acgcaccgtc agtgtactag tcatccacgg agcagggggt gcagggaaga gccgggcgat 2340 ccaggagatg ctgcgaaatc atggagaagt ggccgacaac accaacgtcg tggtcccaac 2400 tgtcaattta gtactggact ggaaatccaa gctaccggaa gtggatccaa aacatttcat 2460 gacgtttgag aaagcttgcg agagagaagg taaggaagta gtaatttttg acgactatgg 2520 caagctacca gcggggtaca ttgacgccta cctgagcatt aagcccacag tggaaactgt 2580 catactgacg ggtgaccaaa ggcaatcagt gcatcatgcc accaatcgag aggctcagac 2640 ggctaatctc aagactaacg tccaacactt cagcagatac tgcgactact acgttaacgc 2700 cacccacaga cagccgcagc gcctcgcgaa tccgatccaa gtacacgcgg agcggaaaac 2760 agggggtgcg gtacacagag ctaacctcat ccctgacact gcaactgttc tggtgccctc 2820 ttttaccaca cagcagtcgc tgaacggcct gggtcgtaga gcactagcct attcgggctg 2880 ccaaggcttg accttgcctc acgtcacaat agtgctggat aacgacacgc cattgtgctc 2940 caacgaggtc ttatacaccg cattctcacg cgcccccgaa tccatcactt tcgtgaacac 3000 ccactcagac cacccagact tcctcgccaa gctggactct acaccatatc tcaaaactct 3060 gttaagtgga gttcgagagg atgagcaagc tggcaaggat gacccactac ccaagcctga 3120 agtgcgtgag cctatgatca agacccacct cccggtagcc aaccttgaga cttacttgga 3180 ggacaaagtt gagcaaatgg aggacaagga taccagagag ctatgggacg gcaaggaaaa 3240 gactaacctg atgcagactc aagaccccgt ggtccaactg tttccgcatc aacaggctaa 3300 agatgaggct ctcttcaaac tcaccataga gcagcgcatc cgcactgcaa ctccagctga 3360 aaattccaaa tcagtgcagc acacattgca agctggcgac ctccttttcg aggcctactc 3420 agatttcatg cgagtgccca aagaaccgca aacgttcaat ccagacttgt gggagcattg 3480 taagcagcta gccctccgga cgtacgtgag caaaccacgc aacaatttgg agcaaggcaa 3540 gaccaggcag gaccccgact tcccagagaa tgccatagcg ctattcaaca agtcccagtg 3600 ggtgaagaag ctagagaagg ttggcttcaa gttcaaagca ggccaaacaa tatccgcctt 3660 taagcaaagc acagttctgt tgaccaccac catggctttg tacttaagga agaaacgtct 3720 ggagcatcag cctcagaatg tgttcatcat gtgtgagaag acacctgctg aatttaatga 3780 cttcgtgcta aatcggtggg acttcaagac cccatcctac acgtccgatt acacgcagta 3840 cgaccagtcc caagacgcgg ccttcctcaa ctttgaactc cggaaggcta ggcatctagg 3900 cgtgcccgag gaagtgttag acttctacaa attcatcaaa atacatgcga aaactttcgt 3960 cggcaactta gcaatcatgc gactgagtgg agagggaccc acctttgatg ccaacaccga 4020 gtgtaacatc gcatatgacg cactcagatt taagctagca cccactgtaa atgcttgcta 4080 cgccggcgac gaccttgttc gggaccaggt gtgtgatgaa agaccagggt ggcaattgag 4140 caaacatcta ttcacactac aagccaaacc gctgaccacc accacaccag acttctgcgg 4200 ttggcggcta acaccccatg ggatagtcaa gtcacctatt cagctgtacc aatcattgca 4260 attggcgttg cggctgaaca agatggaaga agttaagagg tcttacgcca tcgactacag 4320 ctacgcctac aaattgggcg ataagctcca cgaggtcttc aacgaacaag agctggacgc 4380 acaccagctt accacaagaa tattcgtgaa gaaaggcctc aaaattccag aaacaggtga 4440 ccaccttccc caattcaacg tagtctcaga ccgcctgatc accaaccctc actacaagga 4500 gatgcacgac tcaacttcgg accgaacgtt gctctcagag tttgaaatac aggaggacta 4560 cgtgccagat tacattcccc gcatcattca aatatgattt gccaccgggc cgttgagtag 4620 cttatgtttt gcctaaatct gaagatgaaa ctcaacgagc tcgatttcct actgacgtca 4680 cagggcttcg aacgaactaa ctacccactc tccttcccgc ttgtgattca cggcgtaccc 4740 ggctgtggca agagcactct cattagaaca ctgctagttg atatcaacac agcagctcgc 4800 acttgcggta cgccctacgg tgcgacgctt caacatccag gggtcttggc cccccgcgac 4860 cacccaatag ccccatccat cgatcgacgg atactagacg agtatcaact cgctgatacc 4920 cgcaccatag cggacttcaa cgtattattc ggcgatccat accagggctc ctttcgactt 4980 tcaccccatt acaccaagtc gctgtcgcac cgcgtcccaa aacccgtttg cgagttcctc 5040 agaaccagag gttttgacat tgctggggaa aggtcaggga ggatcaccac cgcgaaccca 5100 tactcgccag aactcaatag cactgactgg ctcaagcaca ccatactcca cttaggcccg 5160 gcctcagctg cgctcactca ttcccacgcc atctgcagcc gcagctccgc agaggttcag 5220 ggtctcgaat tcgagaacac taccgtcgtg tatcactcta gcgaaaagac ccagacggtg 5280 cccttctacg tgtgctgcac tcgagcctcc cagtccctca cgctcacctc agacgagttc 5340 catgagtttc acacctccgc ctgacttcag caaggtctac ctcgccgccg tagctggaat 5400 gtgcgccaca cttgcaatcc acattcagat ctcgagtcgg agaccccacg taggggataa 5460 tatccaccac ctaccgcacg gcggccacta ccaagacggc aacaagcgaa tcatctacgc 5520 cggatcacac tactcaaacc aactccaaac tggcgaccac tgggccgcga tactcgtggc 5580 tgtcctcata cttgccatac ttgttagtga gcggtgcctt cgcccttcta accgctcttg 5640 tcctcaccac cactaagcct cagcgaccca cgtgcctaat caccgtgacc gggcactccg 5700 tttccgtaga gggttgtcaa ggcgtcaacg ttgcggaaat catccagagc tttgcttgga 5760 gcagcaatgg cgcccctcag cgttgacttc ttcaaccaag ctcacactta tgtcgtccag 5820 ctccttgaga ggatccacaa caacaccata gtccccatgg gccgaacagt taaccgcatc 5880 ggcggcgaac tcgaccaggg cttgcgtgac ataaacgcta aattggatgt aattaccagt 5940 caaacggcct ccgccccagc tacgactgtg gacgatgcac gccagatccc aatagagggc 6000 ccagctagcc caaccctcac cggtaatcct ctcatccagc agacaccatc cgcgacgcgc 6060 ttcttttcag actcgaacgc cgtgctatca gagactcaac gcatcaccag aattctaccg 6120 tccaacactt tcccgatgca acctagcacc ctcccaacgg atgaactctt tggacaactt 6180 cacgctctac accagaatct cctccagtgg agcattgaca tagacaacag agtgcaacag 6240 ctggcctcct cagtcaacgc caaactggac gcggtgacat tcaacagtgc caatcaagtt 6300 tccaccgcaa cactaaatcg cctacttgag gaacttcacg ccaacatggc caccagccag 6360 cgcactgggg aggctgctca gaccatgcta gagcatcttg ctgatattca acgccgtctg 6420 ccaagcactg ccccgtccga cgcactgcaa caacttatcc aactgctctc caccaacagg 6480 ccagtcgaag aaactacacc cactgccaca cctcattcgg agctgcccgc cttgaaccca 6540 gttcacaacg cgcttcgctg ccgcacttac ggcagcattg aattcaacgg gcaaacgttc 6600 aaacgcccta tagactttgt cgggcgtccg ccatccacca cactccattt gagactggac 6660 gtccgtcgag ctgcagacca cacagcggtc cacttcacgc ttcacgacct tgaccgagtc 6720 cttcttgagc aggtcataca aacaccgcat caactccagc acctaccgga cgatgcactc 6780 ttcctcatta acctccactg cccccgcttc acgtaccgac gtgaagcggg ttgttaagtt 6840 gttccaaagt ctgaattaac aactaacagc cctccagcca tctgtgaata catcatgcct 6900 gacacaccag ctaacccgcc agctaaccaa gccccgaacc ctgtgaacgc gcccaatcca 6960 ccaccgccac caccacgaaa ccccgcttct ggcgggtctt ctgctaatcc actcatacca 7020 gccgacgatg agttggcgac ccttggcacc actgtgcaag ccaacaaagt ggccacacaa 7080 gatgcagtct ctgccgtact agcggagcta caacaaggct ttccaagcgc cactgccatc 7140 gatcttgtct cccttgcctg ggcctgctac cacaacggat cctcccggta cgtaaccctg 7200 gagggatcat ctgcccatgg catcccttta gccagcatca aagacgtggt tgagaaccac 7260 tgcactctgc gccaattctg tatgtactac gccaagctgt gctacaacaa gggccgcagc 7320 gacaagatcc cacctgccaa ctgggccgcc aagggtttca aggccgagag catgtacgcc 7380 gcattcgact tcttcaacgg agtgttgaat gaagcagtcc caaaacctcg cactggcatg 7440 aagtttgtgc cgaccgaagc cgagaaggcc gcacatgcag tgaacgccat catggcaatc 7500 actgagtcac gccaacaagc caaccaattc tcaaaccggg gaaacatgct cgccatgcag 7560 cagatccgca caccagcacc accaccactc attactttcg acaactaagc caacaggccg 7620 ccccattgtt ttcgcgattt tgttaggggt tcaaatcttc aaaatcgctt ccgcaactta 7680 attcggtaat ttgtttcagg gtcccacgtg acccccag 7718 //