ID JQ314461; SV 1; linear; genomic RNA; STD; VRL; 6413 BP. XX AC JQ314461; XX DT 26-APR-2012 (Rel. 112, Created) DT 30-MAY-2012 (Rel. 112, Last updated, Version 2) XX DE Pepino mosaic virus strain EU_EF09_60, complete genome. XX KW . XX OS Pepino mosaic virus OC Viruses; Riboviria; Tymovirales; Alphaflexiviridae; Potexvirus. XX RN [1] RC Publication Status: Online-Only RP 1-6413 RX PUBMED; 22623984. RA Li R., Gao S., Hernandez A.G., Wechter W.P., Fei Z., Ling K.S.; RT "Deep Sequencing of Small RNAs in Tomato for Virus and Viroid RT Identification and Strain Differentiation"; RL PLoS One 7(5):E37127-E37127(2012). XX RN [2] RP 1-6413 RA Li R., Gao S., Hernandez A.G., Wechter W.P., Fei Z., Ling K.-S.; RT ; RL Submitted (22-DEC-2011) to the INSDC. RL Virology Laboratory, USDA-ARS, U.S. Vegetable Laboratory, 2700 Savannah RL Highway, Charleston, SC 29414, USA XX DR MD5; 566e52fbd37ad9326b38acb8e54ee959. DR EuropePMC; PMC3356388; 22623984. DR EuropePMC; PMC5485527; 28621718. XX FH Key Location/Qualifiers FH FT source 1..6413 FT /organism="Pepino mosaic virus" FT /host="Solanum lycopersicum (tomato)" FT /strain="EU_EF09_60" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="18-Nov-2009" FT /note="genotype: EU" FT /db_xref="taxon:112229" FT 5'UTR 1..89 FT gene 90..4409 FT /gene="rep" FT CDS 90..4409 FT /codon_start=1 FT /gene="rep" FT /product="replicase" FT /note="RNA replication" FT /db_xref="GOA:I1V2C4" 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:I1V2C4" FT /protein_id="AFI25334.1" FT /translation="MSRVRNTLEKIRDPQVQSSICEAAYQHVRPVLKESLINCPYALND FT YEADTLENLGVTINPHAIQTHTHAAAKVVENRMLEIVGHHLPKDEKVTFIFLKRSKLRY FT MRRAAVHKDVFVNHNIEPKDFFRYDEESTSTSFSVDTRIAYISDSLHFMEPADVTHLFD FT RCQNLKTLMATVVLPVEAIHRQTSLFPAIYSINYNEEGFEYIPGSHGGGAYFHKYETLE FT WLKYSRFIGHDPLTGLKYTITIQMVESLGANHLFLFQRGNFETPLYRTFQKNSFVTFPN FT IFHPRHVNATKPMPRSRAIQLYLYVKSVNKVTQRDIFAKVRQLISTAELELYDPDELTH FT VVNYFTYVSQLSSINDYDNMLKSSFFKKLVAPMQHDWRCMIEFFRGKSDFNQLLTALQW FT KDFSYTIKTEELVITTHTAIGQAISNAAATYKERKQLTQLVKKNIISLADFEQREPEIT FT YTEFEPETRPQVDCVTNYNNAVKNLGLSEPDEQPQCSSSNSHIPCNEISLAMTDDDNAA FT AIHEIESLLSEPIIAPQLPALPHKTWASYASDTSSMKNREIENIIAELEISRKENNVQQ FT TTHDYHAVFDTAQSSGDLPWKAWIPLLNAHGFKGDQLQYSPDGKVIQPIQDINNKTPRS FT EYPSSIPADLVNTLRNIKRAVYAIPISHRRASAYSSDIKNNRTGKLLCSQSKEWKESFA FT FKMQHEDIVKSGVVIHGCGGSGKSQALQNFLRTLGDSNDCCTVVVPTVELRNDWVNKLC FT KLPMEHIKTFEKAMIQPGFPVVIFDDYTKLPPGYIEAYLFHHANTELFILTGDSRQSVY FT HESNNEAYIASLDEAVAYYANYCGFYLNATHRNVRSLANKLGVYSEKEGHLKITFASNA FT LQKCKVPILVPSQMKKSAMQDIGHKAMTYAGCQGLTAPRVQILLDNHTQHCSDRVLYTC FT LSRAVDSIHFINTGPNNSEFWDKLEATPYLKAFIDTYRDEKTEMLNSKPADDSPAEPEA FT PLTHFPVSNGNNLEKLASALPEKFARELYDKHHGYSNTIQTENPVVQLFQHQQAKDETL FT FWATIEARLSITTPEANLREFVLKKDVGDILFFNYHNVMCLPADPVDFEPRTWEICAAE FT VKNTYLAKPMANLINAASRQSPDFDANKISLFLKSQWVKKVEKLGAVKSKPGQTIAAFM FT QQTVMLYGTMARYLRKMRQRFQPKHIFINCETTTDNLNQFVKQGWNFNRTAQTNDFTAF FT DQSQDGAMLQFEVMKAKFFNIPADIIEGYINIKLNAKIFLGTLSIMRLSGEGPTFDANT FT ECSIAYTATRYHLDSTVKQVYAGDDMALDGVVQEKPSFKKLQNQLKLTSKTLFPKQVKG FT DYAEFCGWTFTPGGIIKNPLKMHASIMLQEAIGNLHTAARSYAIDMKHSYQMGDELHNY FT LTPDEAEQHFLAVRKLHKLHQGEAMRLGEKSPPKATH" FT gene 4435..5139 FT /gene="tgbp1" FT CDS 4435..5139 FT /codon_start=1 FT /gene="tgbp1" FT /product="triple gene block protein 1" FT /db_xref="GOA:Q8B084" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:Q8B084" FT /protein_id="AFI25335.1" FT /translation="MERSTLINLLQLHHFEPKLSVEGIIVVHGIAGTGKTTLLRTLFSA FT YPSLVIGSPRPCYLDKQNKISQVCLSCFPNTHCDIVDEYHLLESFPEPKLAIFGDPCQC FT TYIERLRVPHYTSFRTHRFGKSTAEILNKLFDLNIVSVKKEDDIVEFFNPFEVDPTEHI FT SASEEEVLDFVSDQVVTTSSEELAGLEFAETTFYCTTLAAAVAENPAKTFISLTRHTHK FT LTIGELNARSNS" FT gene 5120..5491 FT /gene="tgbp2" FT CDS 5120..5491 FT /codon_start=1 FT /gene="tgbp2" FT /product="triple gene block protein 2" FT /db_xref="GOA:Q8JJH7" FT /db_xref="InterPro:IPR001896" FT /db_xref="UniProtKB/TrEMBL:Q8JJH7" FT /protein_id="AFI25336.1" FT /translation="MPGLTPRADLTDTYKIIAIAFLLSACIYFQNSHYQPVAGDNLHRL FT PFGGQYQDGTKKISYFPQQQSYFHSGNKLNVLILIFILTLGIVLTNKFSFSFSRTTHQH FT SCYNTHSATNNTQPLSGHH" FT gene 5343..5597 FT /gene="tgbp3" FT CDS 5343..5597 FT /codon_start=1 FT /gene="tgbp3" FT /product="triple gene block protein 3" FT /db_xref="InterPro:IPR003411" FT /db_xref="UniProtKB/TrEMBL:I1V2C7" FT /protein_id="AFI25337.1" FT /translation="MSSYLSSFSHWVSSSPINLVLALVVLLTSILAITHIQQPTIHNHC FT QVIINGAAIVITNCENTPEVLKAINFSPWNGLSFPKFEN" FT CDS 5636..6349 FT /codon_start=1 FT /product="coat protein" FT /db_xref="GOA:Q8JJF2" FT /db_xref="InterPro:IPR000052" FT /db_xref="UniProtKB/TrEMBL:Q8JJF2" FT /protein_id="AFI25338.1" FT /translation="MPDTTPVAATSSAPPTAKDAGAKAPSDFSNPNTAPSLSDLKKVKY FT VSTVTSVATPAEIEALGKIFTAMGLAANETGPAMWDLARAYADVQSSKSAQLIGATPSN FT PALSRRALAAQFDRINITPRQFCMYFAKVVWNILLDSNIPPANWAKLGYQEDTKFAAFD FT FFDGVTNPASLQPADGLIRQPNEKELAAHSVAKYGALARQKISTGNYITTLGEVTRGHM FT GGANTMYAIDAPPEL" FT 3'UTR 6350..6413 XX SQ Sequence 6413 BP; 2063 A; 1477 C; 1172 G; 1701 T; 0 other; gaaaacaaaa caaaaaataa acaaatatac aaagttaaac taacacaaca taaccacgtg 60 gaaaaacagc gaaagcactt taccacatta tgtctcgtgt cagaaatact ttggaaaaga 120 tcagagaccc acaagtacag tccagcattt gtgaagctgc ctatcaacat gttcgacctg 180 tacttaaaga atctctaatc aattgtcctt atgcgcttaa tgattatgaa gcagacaccc 240 ttgagaatct tggtgtcaca attaaccccc atgcaatcca aacacacaca catgccgcag 300 ccaaagtagt cgaaaatcgt atgcttgaaa ttgttggaca tcacttgcct aaagatgaaa 360 aagtaacttt catcttcctc aaacgtagca agctgcgtta catgagaaga gctgctgtgc 420 ataaagatgt ctttgtcaat cataacattg aaccaaaaga cttcttcagg tatgatgaag 480 agtctacatc aaccagcttt tccgttgata cgagaatcgc atacatttca gattctctac 540 actttatgga acctgctgat gtgactcact tgtttgaccg ttgccaaaac cttaaaacat 600 tgatggcaac tgttgtacta cctgtggaag ctatacacag acagacatct ctattccctg 660 cgatttactc cattaactac aatgaagaag gctttgagta tatcccagga tcacacggtg 720 gtggggcata tttccacaaa tatgaaaccc tagaatggct caaatactct agattcattg 780 gacacgatcc attgactggt ttaaaataca ccattacgat tcaaatggtg gagagtcttg 840 gtgccaacca ccttttcctc ttccaaagag gaaactttga gacgccacta tacaggacgt 900 ttcaaaagaa tagttttgtg acattcccaa atatattcca tccccgacac gtcaatgcca 960 caaaacctat gcctagatca agggccatac agctgtacct atatgtgaaa tcagtaaata 1020 aagttacgca aagagatata tttgccaagg ttagacaact gatttccact gctgagctag 1080 aattgtatga ccctgatgaa ctcacgcatg ttgtaaatta tttcacatat gtgtcacaac 1140 tgtcatctat caatgattat gacaacatgc tcaaatccag tttcttcaaa aaactggttg 1200 cacctatgca acacgactgg aggtgcatga ttgaattctt ccggggaaag agtgacttca 1260 atcaactgct cacagctctt caatggaaag atttttccta tactattaaa actgaagagc 1320 ttgtaattac tacacacact gctataggac aagcaataag caatgcagct gccacatata 1380 aagaaagaaa gcagctgact caattggtaa aaaaaaatat aatatcctta gcagattttg 1440 aacagagaga acctgaaata acttacactg agtttgagcc tgaaactagg ccccaagtgg 1500 actgcgttac taattataat aatgcagtaa aaaatttagg tctttctgaa cctgatgaac 1560 agccccaatg ttcatcttct aacagtcaca taccctgcaa tgaaatatcc ttagcaatga 1620 ctgatgacga caatgctgcg gccattcacg aaattgaatc tctattgtct gaaccgataa 1680 tagctcctca actcccagca ttgccacaca agacatgggc cagttatgcc tcagacactt 1740 catccatgaa gaaccgtgag attgagaaca taattgctga gcttgaaatc tcacgtaagg 1800 aaaataatgt gcagcaaact actcatgatt accatgcagt ttttgacaca gctcagagct 1860 ccggagatct cccatggaaa gcatggattc cacttctgaa tgcacacggc ttcaagggag 1920 accaacttca gtacagtccg gatggcaaag tgattcagcc aatccaggac atcaacaaca 1980 aaacaccaag atctgagtac ccatccagca ttcctgcaga tcttgtgaat acactgcgca 2040 acattaaaag agcagtgtat gccattccta ttagccatcg aagggcaagt gcttacagct 2100 ctgatatcaa aaacaatagg accggcaaat tactctgttc ccaatcaaaa gaatggaagg 2160 aaagttttgc tttcaaaatg caacatgaag acatcgttaa atctggagta gtcattcatg 2220 gctgtggcgg ctctggaaaa tcacaagcat tacaaaactt tctcagaact cttggcgact 2280 ctaatgactg ctgcacagtg gttgtgccaa ctgttgaact cagaaatgat tgggtgaaca 2340 aattgtgtaa gctacccatg gaacacatta aaacatttga aaaagcaatg attcaaccag 2400 gattcccagt tgttatcttt gatgactaca ctaaattgcc acctggttac attgaagcct 2460 atttgttcca ccatgccaac actgaacttt tcattcttac tggagactcg cggcaaagtg 2520 tatatcatga gtccaacaat gaagcataca ttgcctcatt agatgaagcc gtcgcttatt 2580 atgctaacta ctgtggattt tacctaaatg ctacacacag aaatgttcgc agtttggcca 2640 ataagctagg tgtctacagt gagaaagaag gtcacctcaa aattaccttt gcctcaaatg 2700 ctctacaaaa gtgcaaagtg ccaattttgg tgccctctca aatgaagaag agtgctatgc 2760 aagacatagg gcacaaagcc atgacctacg ctgggtgtca agggcttact gcaccgagag 2820 tccaaatttt gcttgacaac cacacacaac actgctcaga cagggtgctg tacacttgtc 2880 tctccagagc tgtggattcc atccacttta tcaatacagg cccaaacaat tctgaatttt 2940 gggacaagct tgaggcaaca ccatacctca aagcatttat tgatacttac agagatgaga 3000 aaacagaaat gctcaattct aagcctgctg atgacagtcc cgctgagcct gaagctccat 3060 tgactcactt tccagtgtca aacggcaata acttggaaaa gttagcttca gcgcttcctg 3120 aaaaattcgc aagagagtta tatgataaac accatggata ttctaataca atccaaactg 3180 aaaatccagt ggtgcaactt ttccagcatc aacaagccaa agatgaaaca cttttctggg 3240 caacaataga agctagactt tctattacaa ctccggaagc caacttacga gaatttgtgc 3300 taaagaaaga tgttggagat atcttgtttt tcaattacca caatgtcatg tgcttacctg 3360 ccgacccagt ggatttcgag ccaagaacat gggaaatatg tgctgctgaa gttaaaaata 3420 catacttagc caaaccaatg gctaacctga tcaatgctgc tagcagacaa tctcctgatt 3480 tcgacgctaa caaaatttcc ctgttcctaa aatctcaatg ggtcaagaaa gtggaaaaat 3540 taggtgctgt caagtcaaag cctggccaga ccattgcggc tttcatgcaa caaacagtga 3600 tgttgtatgg gaccatggcc agatacctca gaaagatgag acaaagattt caaccaaaac 3660 atatttttat caattgtgaa acaacaactg ataatctgaa ccaatttgtt aaacaaggtt 3720 ggaactttaa cagaacagct cagacaaatg atttcacagc ttttgaccaa tcacaagatg 3780 gtgcaatgct tcaatttgaa gtcatgaagg caaaattctt caatatccct gccgacatca 3840 ttgaaggata catcaacatc aaattgaacg ccaaaatttt ccttggcaca ttgtccatta 3900 tgaggttgtc tggtgaaggt ccaacttttg atgccaacac agaatgttca atagcatata 3960 ctgctacaag ataccatctt gattctacag tcaagcaggt ttatgctgga gatgatatgg 4020 cattagatgg agttgtccaa gaaaaaccct cttttaaaaa actacagaac cagcttaaac 4080 tcacctcaaa gacactattt ccaaaacagg ttaaaggcga ttatgctgaa ttctgcggtt 4140 ggactttcac tcctggtggt atcattaaaa accctttgaa aatgcatgct tccattatgt 4200 tgcaagaggc aatcggcaat ttacacaccg ctgccagatc gtatgccatt gacatgaagc 4260 attcatacca aatgggtgat gagctgcaca attacttaac accagatgaa gctgaacaac 4320 acttccttgc tgttcggaag ttgcacaagt tacaccaagg tgaagcaatg agacttgggg 4380 aaaagagccc tccaaaagca acacattgag gggttaagtt ttccccagtt cgaaatggaa 4440 agatcaactc tgattaattt acttcaattg caccacttcg agccaaaact cagtgttgaa 4500 ggaatcatag ttgtgcacgg aattgcaggc actgggaaaa ctactttact taggacttta 4560 ttttctgctt accctagctt agttataggt tcacctaggc cttgctattt agataaacaa 4620 aacaaaattt cacaagtttg cttatcttgc tttcccaata cccattgtga tattgtcgat 4680 gagtatcatt tgctagaaag ttttccagaa ccaaaattgg ctatctttgg tgacccctgt 4740 caatgcacat acattgagag acttagagtc ccacattaca cttccttcag aactcataga 4800 tttggaaagt caactgctga gattttgaac aaactgtttg accttaatat agtctcagtt 4860 aagaaagaag acgacatcgt tgaattcttt aacccttttg aagttgaccc cactgagcat 4920 atctctgcct ctgaagaaga agtcttggac tttgtttctg accaagtggt gaccactagc 4980 tcagaggaac tagcaggact tgagtttgca gaaacaactt tctactgcac cacattggcc 5040 gcagctgttg ctgaaaatcc tgctaagact ttcatctctc tgactagaca cacccacaaa 5100 ctcaccattg gggaactaaa tgccaggtct aactcctaga gctgacctca ctgacacata 5160 caaaatcatt gccattgctt tcttgttgtc agcttgcatt tacttccaaa atagccacta 5220 ccaacccgtt gctggagaca acttgcaccg tttgcctttt ggtggccaat atcaagacgg 5280 caccaaaaag atatcttatt ttccacaaca gcagtcatat tttcattctg gaaacaaatt 5340 aaatgtcctc atacttatct tcattctcac attgggtatc gtcctcacca ataaatttag 5400 ttttagcttt agtcgtacta ctcaccagca ttcttgctat aacacacatt cagcaaccaa 5460 caatacacaa ccattgtcag gtcatcatta acggtgcagc aatagtcata acaaattgtg 5520 agaacacacc agaagtgctt aaagcaatca acttctcccc ttggaacggg ttaagttttc 5580 ctaaatttga aaattaatat tgagtgttca caaaaatcaa cttcaataaa caatcatgcc 5640 tgacacaaca cctgttgctg ccacttcaag tgcaccaccc acagccaaag atgctggtgc 5700 caaagctcct tctgacttct caaatcccaa tacagctcct agtctcagtg atttgaagaa 5760 agtcaagtat gtctccaccg tgacctccgt ggccacacca gcggaaattg aagccctagg 5820 caaaatcttc accgctatgg gccttgccgc caatgagact ggtccggcca tgtgggatct 5880 agctcgtgca tatgctgacg tgcagagttc taaatcggca cagctgattg gagccacccc 5940 ttccaaccct gcactatcac gccgagccct tgctgctcag tttgatcgaa ttaatataac 6000 ccccaggcaa ttttgcatgt actttgccaa agttgtttgg aacatacttc tcgacagcaa 6060 cattccacca gcaaattggg ccaaacttgg ttaccaagaa gatacaaaat ttgctgcatt 6120 tgacttcttc gatggagtca ccaaccctgc cagcctgcag cctgctgatg gtcttatcag 6180 gcagccaaat gagaaagaac tagctgctca ctccgtagct aagtacggcg ccttagctag 6240 gcaaaagatc tccacaggta attatattac cacacttgga gaagtcacac gtggacacat 6300 gggaggagct aacaccatgt acgcgataga cgcaccccct gaactttaaa cactcgaaac 6360 ttaatcagag tggggttttc tacagtttat tttcctaatt atttctttga aat 6413 //