ID JX866665; SV 1; linear; genomic RNA; STD; VRL; 6411 BP. XX AC JX866665; XX DT 19-APR-2013 (Rel. 116, Created) DT 19-APR-2013 (Rel. 116, Last updated, Version 1) XX DE Pepino mosaic virus isolate VFBC12-04, complete genome. XX KW . XX OS Pepino mosaic virus OC Viruses; Riboviria; Tymovirales; Alphaflexiviridae; Potexvirus. XX RN [1] RC Publication Status: Online-Only RP 1-6411 RX PUBMED; 23587202. RA Ling K.S., Li R., Bledsoe M.; RT "Pepino mosaic virus genotype shift in North America and development of a RT loop-mediated isothermal amplification for rapid genotype identification"; RL Virol J 10(1):117-117(2013). XX RN [2] RP 1-6411 RA Ling K.-S., Li R., Bledsoe M.; RT ; RL Submitted (23-SEP-2012) to the INSDC. RL Virology Laboratory, USDA-ARS, U.S. Vegetable Laboratory, 2700 Savannah RL Highway, Charleston, SC 29414, USA XX DR MD5; d0333d609b7dd5787bed016f41847bd2. DR EuropePMC; PMC3639891; 23587202. XX CC ##Assembly-Data-START## CC Assembly Method :: DNASTAR v. Lasergene 10 CC Sequencing Technology :: Sanger dideoxy sequencing CC ##Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..6411 FT /organism="Pepino mosaic virus" FT /host="Solanum lycopersicum" FT /isolate="VFBC12-04" FT /mol_type="genomic RNA" FT /db_xref="taxon:112229" FT 5'UTR 1..85 FT gene 86..4402 FT /gene="rep" FT CDS 86..4402 FT /codon_start=1 FT /gene="rep" FT /product="replicase" FT /function="RNA replication" FT /db_xref="GOA:M9P9D9" 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:M9P9D9" FT /protein_id="AFZ88253.1" FT /translation="MSRVRNTLEKIRDPQVQSSICEAAYQHVRPVLKESLINCPYALND FT YEADTLENLGVTINPHAIQTHTHAAAKVVENRMLEIVGHHLPKDEKVTFIFLKRSKLRY FT MRRAAVHKDVFVNHNIEPKDFFRYDEESTSTSFSVNTRIAYISDSLHFMEPADVTHLFD FT RCHNLKTLMATVVLPVEAIHKQTSLFPAIYSINYNEEGFEYIPGSHGGGAYFHKYETLD FT WLKYSRFVGQDPLTGLRYTITIQMVESLGANHLFLFQRGNFETPLYRTFQKNSFVTFPN FT IFHPQHVNATKPMPRSRAIQLYLYVKSVNKVTQRDIFAKVRQLISTAELELYDPDELTH FT IVNYFAYVSELSSINDYDNMLKSSFFKKLVAPMQHDWRCMIEFFRGKSDFNQLLTALQW FT KDFSYTIKTEELVIATHTEIGQAICKAATTYKERRQLTNLVKQGAVTLADFKEADQHVE FT YTHFDPEFKSTVDPHRSYENAINNLGIEINEDVPESSGTNETLLNNEISLAMSSAEHVQ FT AVQEIESLLSNPEAAPILPPAHVKTWASLASDTSSTKNREIEDIVAKLEIQRNEASCSY FT LQPNKELSKPKAADNNLPWNAWIPLLNAHGFKGDQLQYGPDGNLIQPIQDINNSQPRSD FT YPSSLPCELVETLRKIKRAVYAIPISHRRASAYSSDIKNNRTGKLLCNQSKEWKESFAF FT KMQHEDIVKSGVVIHGCGGSGKSQALQNFLRTLGDSNDCCTVVVPTVELRNDWVNKLHK FT LPMEHIKTFEKAMIQPGFPIVIFDDYTKLPPGYIEAYLFHHANTELFILTGDSRQSVYH FT ESNNEAYIASLDEAVAYYANYCGFYLNATHRNVRSLANKLGVYSEKEGHLKITFASHAL FT QKCKVPILVPSQMKKSAMLDIGHKSMTYAGCQGLTAPKVQILLDNHTQHCSDRVLYTCL FT SRAVDSIHFINTGPNNSEFWDKLEATPYLKAFIDVYRDEKTEMLNSKPADDSPTEPEAP FT VTHFPIANGNNLEKLASALPEKFAREIYDKHHGHSNTIQTENPVVQLFQHQQAKDETLF FT WATIEARLSITTPEANLREFLLKKDVGDVLFFNYHNAMCLPADPVDFEEKTWEICAAEV FT KNTYLAKPMANLINAASRQSPDFDSNKISLFLKSQWVKKVEKLGAIKSKPGQTIAAFMQ FT QTVMLYGTMARYLRKMRQRFQPKHIFINCETTTDDLNKFVKDGWNFNRTAQTNDFTAFD FT QSQDGAMLQFEVMKAKFFNIPADVIEGYINIKLNAKIFLGTLSIMRLSGEGPTFDANTE FT CSIAYTATRFHIDNTVKQVYAGDDMALDGVVSEKKSFRKLQNLLKLTSKTLYPKQVKGD FT YAEFCGWTFTPGGIIKNPLKMHASIMLQEAIGNLHTAARSYAIDMKHSYQMGDQLHDYL FT TPDEAEQHFLAVRKLHKLHQGEAMRLGEKSPPRSTH" FT gene 4428..5132 FT /gene="tgbp1" FT CDS 4428..5132 FT /codon_start=1 FT /gene="tgbp1" FT /product="triple gene block protein 1" FT /db_xref="GOA:M9P8X4" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:M9P8X4" FT /protein_id="AFZ88254.1" FT /translation="MERSTLINLLLLHKFEHKINTEGIIVVHGIAGTGKTTLLRTLFSA FT YPSLVIGSPRPCYLDKANKISQVCLSCFPNTLCDIVDEYHLLESFPEPKLAIFGDPCQC FT TYIERLRTPNYTSFRTHRFGKSTAALLNKLFDLNIESVKAQDDTVEYFDPFAVDPSEHI FT SASEKEVLEFVGDQVETTSSEELAGLEFCEVTFYCTTLAGAVQENPAKTFISLTRHTSK FT LTIGELNARSDS" FT gene 5113..5484 FT /gene="tgbp2" FT CDS 5113..5484 FT /codon_start=1 FT /gene="tgbp2" FT /product="triple gene block protein 2" FT /db_xref="GOA:M9P928" FT /db_xref="InterPro:IPR001896" FT /db_xref="UniProtKB/TrEMBL:M9P928" FT /protein_id="AFZ88255.1" FT /translation="MPGLTPRADLTDTYKIIAIAFLLSACIYFQNSHYQPVAGDNLHRL FT PFGGQYQDGTKKISYFPQQQSYFHSGNKLNVLILIFILTLGIVLTNKFSFSISRNTHQH FT HCYNTHSATQTGQSMPGHH" FT gene 5336..5607 FT /gene="tgbp3" FT CDS 5336..5584 FT /codon_start=1 FT /gene="tgbp3" FT /product="triple gene block protein 3" FT /db_xref="GOA:Q699Z6" FT /db_xref="InterPro:IPR003411" FT /db_xref="UniProtKB/TrEMBL:Q699Z6" FT /protein_id="AFZ88256.1" FT /translation="MSSYSSSFLHWVLSSPINLVLALAVILTSIIATTHILQPKQVNQC FT QVIIDGAAIVITNCPNTPEVLKAINFSPWNGLSFPQL" FT CDS 5630..6343 FT /codon_start=1 FT /product="coat protein" FT /db_xref="GOA:M9P8E2" FT /db_xref="InterPro:IPR000052" FT /db_xref="UniProtKB/TrEMBL:M9P8E2" FT /protein_id="AFZ88257.1" FT /translation="MENQPTASNPSEVPPTAAQAGAQSPADFSNPNTAPSLSDLKKIKY FT VSTVTSVATPAEIEALGKIFTAMGLAANETGPAMWDLARAYADVQSSKSAQLIGATPSN FT PALSRRALAAQFDRINITPRQFCMYFAKIVWNILLDSNVPPANWAKLGYQEDTKFAAFD FT FFDGVTNPASLQPADGLIRQPNEKELAAHSVAKYGALARQKISTGNYLTTLGEVTRGHM FT GGANTMYAIDAPPEL" FT 3'UTR 6344..6411 XX SQ Sequence 6411 BP; 2049 A; 1463 C; 1156 G; 1743 T; 0 other; gaaaacaaaa cataacacat aatatcaaaa gtgaccaaac acaacataac cacgtggaaa 60 aacagcgaaa gcactttacc acattatgtc tcgtgttaga aacactttag aaaagatcag 120 ggacccacaa gtacaatcta gcatttgtga agccgcttac caacatgtta gacctgtgct 180 caaggaatcc ctaatcaact gtccttatgc gcttaatgac tatgaagcag acacccttga 240 gaatttaggt gtcacaataa acccccatgc aatccaaaca catactcatg cggcagctaa 300 agttgtggaa aatagaatgc tcgaaattgt tggacaccac ttgcccaagg acgagaaagt 360 taccttcatt ttcctcaaaa gaagcaaact gagatacatg cgaagagctg ctgtacataa 420 agatgttttt gttaatcaca atatagaacc caaggatttc ttcaggtatg atgaggaatc 480 tacatctact agtttctccg tgaacaccag gatcgcttac atctccgatt ctctacattt 540 catggaacca gctgatgtga cccacctctt tgaccgttgc cacaatctta aaacactgat 600 ggcaactgtt gttttacctg ttgaagccat ccacaaacaa acatctttat ttccagcgat 660 atactccatt aattacaatg aagaaggttt tgagtatatc cctggttctc atggtggagg 720 ggcatacttt cataagtatg aaacattaga ctggctcaaa tactctagat tcgttggcca 780 ggacccctta actggactcc gatacacaat aaccattcaa atggtggaga gtttaggagc 840 caaccatctt ttcctcttcc aaagaggaaa ttttgaaaca cctttataca gaacgtttca 900 aaaaaatagc tttgtgacct ttcctaacat cttccatccc caacatgtta atgccacaaa 960 gcccatgcca agatccaggg caattcagct gtatttatat gtcaaatctg tcaataaggt 1020 gacacaaaga gatatctttg cgaaagtaag gcaacttata tctacagctg aacttgagtt 1080 gtatgaccct gacgaactta cacatattgt caattatttc gcatatgtct cagaactaag 1140 ctcaatcaac gactacgaca atatgctcaa atcaagtttt ttcaaaaaac ttgttgcacc 1200 catgcaacat gactggaggt gcatgattga attctttcgg ggaaaaagtg atttcaatca 1260 acttttaact gctcttcaat ggaaagactt ctcttacacc attaaaactg aagagttagt 1320 tattgctaca cacactgaaa ttggccaggc aatctgtaaa gctgcgacca catacaaaga 1380 aagaagacaa ttgaccaatt tagtcaaaca aggcgcagta acattagctg atttcaaaga 1440 agcggaccag catgtggagt acactcactt tgatcctgag tttaaatcca ctgttgaccc 1500 ccaccggagc tatgaaaatg ccatcaacaa tcttggcatt gagattaatg aggatgtacc 1560 tgaaagttcc ggcactaatg aaacattgct aaacaatgaa atatctttag caatgtcatc 1620 tgctgaacat gtgcaagctg ttcaagaaat tgagtcttta ctctctaacc ccgaagcggc 1680 accaatattg ccccctgcac atgttaaaac atgggctagc cttgcatctg acacttcaag 1740 cactaaaaac cgcgaaatcg aagatatagt ggctaagctg gaaatacaaa gaaatgaagc 1800 tagttgcagc taccttcaac caaataagga attgtcaaaa cccaaggctg ccgataacaa 1860 tctcccctgg aatgcttgga tcccattgct taatgcacac ggcttcaaag gagatcaatt 1920 acaatacggc ccagatggta acttgataca gcccatccaa gacattaaca attcacagcc 1980 tagatctgac tatccgtctt ctctgccatg tgaacttgtg gaaactttga ggaaaattaa 2040 gcgtgctgtc tatgccatcc caataagcca caggagggct agtgcttaca gttctgacat 2100 caaaaataac agaactggca aacttctctg caaccaaagc aaagaatgga aagaaagctt 2160 tgctttcaaa atgcaacatg aagacatcgt caaatcaggt gttgtcatac atggttgcgg 2220 aggttctggc aaatcccagg cattacaaaa cttcttgaga acattgggtg attcaaatga 2280 ttgctgtact gttgtagtac ccactgttga gcttagaaat gactgggtaa acaaactcca 2340 taaattgccc atggagcata tcaaaacatt tgagaaagca atgattcaac ctggctttcc 2400 aattgttata tttgatgatt acaccaagtt gccacccggc tacattgaag catacctatt 2460 tcaccatgcc aacactgagc ttttcatact tactggtgat tctaggcaaa gcgtgtacca 2520 tgaatctaac aatgaagcgt acattgcctc attagatgaa gctgttgcat actacgctaa 2580 ttactgcggt ttttatttaa atgctactca tagaaatgtc cgtagtttag ccaacaaact 2640 tggtgtttac agtgagaaag aaggacactt gaaaatcact tttgcttcac atgccttaca 2700 aaagtgcaaa gtgccaattt tagttccttc tcaaatgaaa aagagtgcta tgttagacat 2760 tggacataaa tccatgacct atgctggttg ccaaggttta acagcaccca aggtacaaat 2820 tctccttgat aaccacacgc aacattgctc tgacagagtt ctgtacacct gtctgtctcg 2880 tgcagtcgat tccatccact tcatcaatac tggtcccaac aattcagaat tttgggataa 2940 gcttgaagca acaccatatc tcaaagcctt cattgatgtc tatagagatg aaaaaactga 3000 aatgctcaat tctaagcctg ctgatgacag cccaactgag cctgaagcac ctgttacaca 3060 tttcccaata gcaaatggaa ataacttaga gaaattagct tctgctttgc ctgaaaaatt 3120 tgctagggag atttatgaca agcatcatgg ccactccaac acaatccaaa ctgagaaccc 3180 tgtggtccaa cttttccaac atcaacaagc gaaagacgag acactctttt gggctacgat 3240 tgaagctaga ttgtccataa caactcctga agcaaacctc agagaatttt tgcttaagaa 3300 agatgttgga gacgttctct tcttcaatta ccataatgcg atgtgcttgc ctgctgaccc 3360 tgttgacttt gaagaaaaga cctgggagat ctgtgctgct gaagtgaaaa acacttatct 3420 tgccaaaccc atggccaatc ttatcaatgc ggcaagtaga caatcacccg actttgactc 3480 taataagatc tcattattcc taaagtctca atgggtgaaa aaagtggaaa aacttggagc 3540 tatcaaatca aaacctggtc agaccatagc tgcttttatg caacaaacag tcatgttgta 3600 tggtactatg gccaggtact taagaaaaat gcggcaaaga ttccagccaa aacacatatt 3660 catcaattgt gaaaccacaa ctgatgatct caataaattt gtcaaagatg gctggaactt 3720 taacagaacc gcccaaacaa atgacttcac tgcttttgat cagtcacaag atggagcaat 3780 gctgcaattt gaagtcatga aagcaaaatt ttttaacatt ccagctgatg tcattgaagg 3840 ctacatcaac atcaagctga atgctaaaat tttccttgga acactctcaa taatgagact 3900 ttctggtgaa ggtcccacat ttgacgctaa cactgagtgt tcgattgcat acactgccac 3960 aagattccat attgacaata ctgttaagca agtgtatgcc ggtgacgaca tggcattaga 4020 tggagttgtg agtgaaaaga aatcattcag gaagttacaa aatctactaa aactcacttc 4080 aaaaacgctg tacccaaaac aggttaaagg ggattacgct gaattttgtg gttggacttt 4140 cacaccaggg ggtataatta aaaatccact taaaatgcat gcctcaatta tgctgcaaga 4200 agccattggc aatctgcaca cagcagccag atcttatgca attgacatga agcattcata 4260 ccaaatgggt gaccaactgc atgactacct aacccccgat gaagctgaac aacatttcct 4320 agctgtgaga aagcttcaca aactccatca aggcgaggcc atgcgtcttg gggagaaaag 4380 tccaccaaga tcaacccatt aaggggttaa gttttcccca gtttgaaatg gaaagatcaa 4440 ctttgatcaa tttacttctg ttacacaaat ttgaacacaa gattaacact gaaggaatca 4500 ttgttgtgca cggaattgct ggaactggga aaaccacatt gcttaggact ttattttctg 4560 cataccctag cttagttata ggttcaccta ggccttgtta cttagataaa gctaataaaa 4620 tttcacaagt ttgcctttct tgttttccaa ataccttgtg tgacattgtt gatgagtacc 4680 atctcttaga aagttttcct gaaccaaaac tagccatttt tggtgacccc tgtcagtgca 4740 cttacattga aaggttgaga acacccaact acacatcctt cagaacacac cgatttggca 4800 aatccactgc tgctctacta aataagttat ttgatcttaa cattgaatca gtcaaagcac 4860 aagacgacac agtagaatac tttgatcctt ttgcagtgga cccctctgaa cacatttctg 4920 cttcagaaaa agaagttttg gaattcgtag gtgatcaagt tgagactaca agctctgaag 4980 aactagctgg tctcgagttt tgtgaagtta ctttctactg taccacactt gctggtgctg 5040 ttcaagaaaa tcctgccaaa accttcattt cactcactag acacacttca aagctcacaa 5100 ttggtgaact aaatgccagg tctgactcct agagctgatc ttactgacac gtataaaatc 5160 attgctatag cctttctact gtcagcttgc atttacttcc aaaacagtca ttatcaacca 5220 gttgcaggtg ataatttgca cagactaccc tttggtggtc agtatcaaga cggaactaag 5280 aagatttctt actttccgca gcaacaatcc tactttcact caggaaacaa gcttaatgtc 5340 ctcatactca tcttcattct tacactgggt attgtcctca ccaataaatt tagttttagc 5400 attagccgta atactcacca gcatcattgc tacaacacac attctgcaac ccaaacaggt 5460 caatcaatgc caggtcatca ttgacggtgc agccatagtt ataacaaatt gtccaaacac 5520 acccgaagtt cttaaagcta tcaacttctc cccttggaac gggttaagtt ttcctcaatt 5580 gtgaaatcat atttgttatc tagttaaatt caaacaattt aactcaacta tggaaaacca 5640 acctacagct tctaacccat cagaagtacc accaactgct gctcaagctg gtgcccagag 5700 cccagccgac ttctcaaatc ctaatacagc tccttcccta agtgatttga agaagatcaa 5760 atacgtgtca actgtcactt cagttgccac tcctgctgaa attgaggccc ttggcaagat 5820 ctttactgcc atgggtttag cagccaatga gaccggacct gccatgtggg acctcgctcg 5880 tgcttatgct gatgtgcaaa gttcaaaatc tgcacaactt ataggtgcca caccatccaa 5940 ccctgctttg tctagacgtg cacttgctgc acagtttgat cgtatcaata tcacacccag 6000 acaattctgc atgtattttg caaaaattgt ttggaacata ctgttagaca gcaatgtgcc 6060 acctgccaac tgggcaaaat tgggctatca ggaagatacc aagtttgctg cttttgactt 6120 ctttgatgga gtcacaaatc cagctagtct acagcctgct gatggcctaa tcaggcagcc 6180 caatgaaaaa gagcttgctg ctcactcggt tgctaaatat ggtgcccttg cccgccagaa 6240 aatatccact ggtaactacc tcaccaccct tggcgaagtt acacgtggtc acatgggcgg 6300 cgctaacact atgtacgcaa ttgatgcacc tcctgaactt taacactcga aacttaatca 6360 gagtggggtt ttctatagtt tattttccct tagtatctaa atctactaaa t 6411 //