Sequence of DPV Pepino mosaic virus
Pepino mosaic virus strain EU_EF09_60, complete genome.
ACC No: JQ314461
Dated: 2012-05-30 | Length: 6413 | CRC: -1136601900
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; ssRNA positive-strand viruses, no DNA stage; Tymovirales;
OC 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
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 /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 /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 /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 /protein_id="AFI25337.1"
FT /translation="MSSYLSSFSHWVSSSPINLVLALVVLLTSILAITHIQQPTIHNHC
FT QVIINGAAIVITNCENTPEVLKAINFSPWNGLSFPKFEN"
FT CDS 5636. .6349
FT /codon_start=1
FT /product="coat protein"
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;
jq314461 Length: 6413 30-MAY-2012 Type: N Check: 7667 ..
1 gaaaacaaaa caaaaaataa acaaatatac aaagttaaac taacacaaca
51 taaccacgtg gaaaaacagc gaaagcactt taccacatta tgtctcgtgt
101 cagaaatact ttggaaaaga tcagagaccc acaagtacag tccagcattt
151 gtgaagctgc ctatcaacat gttcgacctg tacttaaaga atctctaatc
201 aattgtcctt atgcgcttaa tgattatgaa gcagacaccc ttgagaatct
251 tggtgtcaca attaaccccc atgcaatcca aacacacaca catgccgcag
301 ccaaagtagt cgaaaatcgt atgcttgaaa ttgttggaca tcacttgcct
351 aaagatgaaa aagtaacttt catcttcctc aaacgtagca agctgcgtta
401 catgagaaga gctgctgtgc ataaagatgt ctttgtcaat cataacattg
451 aaccaaaaga cttcttcagg tatgatgaag agtctacatc aaccagcttt
501 tccgttgata cgagaatcgc atacatttca gattctctac actttatgga
551 acctgctgat gtgactcact tgtttgaccg ttgccaaaac cttaaaacat
601 tgatggcaac tgttgtacta cctgtggaag ctatacacag acagacatct
651 ctattccctg cgatttactc cattaactac aatgaagaag gctttgagta
701 tatcccagga tcacacggtg gtggggcata tttccacaaa tatgaaaccc
751 tagaatggct caaatactct agattcattg gacacgatcc attgactggt
801 ttaaaataca ccattacgat tcaaatggtg gagagtcttg gtgccaacca
851 ccttttcctc ttccaaagag gaaactttga gacgccacta tacaggacgt
901 ttcaaaagaa tagttttgtg acattcccaa atatattcca tccccgacac
951 gtcaatgcca caaaacctat gcctagatca agggccatac agctgtacct
1001 atatgtgaaa tcagtaaata aagttacgca aagagatata tttgccaagg
1051 ttagacaact gatttccact gctgagctag aattgtatga ccctgatgaa
1101 ctcacgcatg ttgtaaatta tttcacatat gtgtcacaac tgtcatctat
1151 caatgattat gacaacatgc tcaaatccag tttcttcaaa aaactggttg
1201 cacctatgca acacgactgg aggtgcatga ttgaattctt ccggggaaag
1251 agtgacttca atcaactgct cacagctctt caatggaaag atttttccta
1301 tactattaaa actgaagagc ttgtaattac tacacacact gctataggac
1351 aagcaataag caatgcagct gccacatata aagaaagaaa gcagctgact
1401 caattggtaa aaaaaaatat aatatcctta gcagattttg aacagagaga
1451 acctgaaata acttacactg agtttgagcc tgaaactagg ccccaagtgg
1501 actgcgttac taattataat aatgcagtaa aaaatttagg tctttctgaa
1551 cctgatgaac agccccaatg ttcatcttct aacagtcaca taccctgcaa
1601 tgaaatatcc ttagcaatga ctgatgacga caatgctgcg gccattcacg
1651 aaattgaatc tctattgtct gaaccgataa tagctcctca actcccagca
1701 ttgccacaca agacatgggc cagttatgcc tcagacactt catccatgaa
1751 gaaccgtgag attgagaaca taattgctga gcttgaaatc tcacgtaagg
1801 aaaataatgt gcagcaaact actcatgatt accatgcagt ttttgacaca
1851 gctcagagct ccggagatct cccatggaaa gcatggattc cacttctgaa
1901 tgcacacggc ttcaagggag accaacttca gtacagtccg gatggcaaag
1951 tgattcagcc aatccaggac atcaacaaca aaacaccaag atctgagtac
2001 ccatccagca ttcctgcaga tcttgtgaat acactgcgca acattaaaag
2051 agcagtgtat gccattccta ttagccatcg aagggcaagt gcttacagct
2101 ctgatatcaa aaacaatagg accggcaaat tactctgttc ccaatcaaaa
2151 gaatggaagg aaagttttgc tttcaaaatg caacatgaag acatcgttaa
2201 atctggagta gtcattcatg gctgtggcgg ctctggaaaa tcacaagcat
2251 tacaaaactt tctcagaact cttggcgact ctaatgactg ctgcacagtg
2301 gttgtgccaa ctgttgaact cagaaatgat tgggtgaaca aattgtgtaa
2351 gctacccatg gaacacatta aaacatttga aaaagcaatg attcaaccag
2401 gattcccagt tgttatcttt gatgactaca ctaaattgcc acctggttac
2451 attgaagcct atttgttcca ccatgccaac actgaacttt tcattcttac
2501 tggagactcg cggcaaagtg tatatcatga gtccaacaat gaagcataca
2551 ttgcctcatt agatgaagcc gtcgcttatt atgctaacta ctgtggattt
2601 tacctaaatg ctacacacag aaatgttcgc agtttggcca ataagctagg
2651 tgtctacagt gagaaagaag gtcacctcaa aattaccttt gcctcaaatg
2701 ctctacaaaa gtgcaaagtg ccaattttgg tgccctctca aatgaagaag
2751 agtgctatgc aagacatagg gcacaaagcc atgacctacg ctgggtgtca
2801 agggcttact gcaccgagag tccaaatttt gcttgacaac cacacacaac
2851 actgctcaga cagggtgctg tacacttgtc tctccagagc tgtggattcc
2901 atccacttta tcaatacagg cccaaacaat tctgaatttt gggacaagct
2951 tgaggcaaca ccatacctca aagcatttat tgatacttac agagatgaga
3001 aaacagaaat gctcaattct aagcctgctg atgacagtcc cgctgagcct
3051 gaagctccat tgactcactt tccagtgtca aacggcaata acttggaaaa
3101 gttagcttca gcgcttcctg aaaaattcgc aagagagtta tatgataaac
3151 accatggata ttctaataca atccaaactg aaaatccagt ggtgcaactt
3201 ttccagcatc aacaagccaa agatgaaaca cttttctggg caacaataga
3251 agctagactt tctattacaa ctccggaagc caacttacga gaatttgtgc
3301 taaagaaaga tgttggagat atcttgtttt tcaattacca caatgtcatg
3351 tgcttacctg ccgacccagt ggatttcgag ccaagaacat gggaaatatg
3401 tgctgctgaa gttaaaaata catacttagc caaaccaatg gctaacctga
3451 tcaatgctgc tagcagacaa tctcctgatt tcgacgctaa caaaatttcc
3501 ctgttcctaa aatctcaatg ggtcaagaaa gtggaaaaat taggtgctgt
3551 caagtcaaag cctggccaga ccattgcggc tttcatgcaa caaacagtga
3601 tgttgtatgg gaccatggcc agatacctca gaaagatgag acaaagattt
3651 caaccaaaac atatttttat caattgtgaa acaacaactg ataatctgaa
3701 ccaatttgtt aaacaaggtt ggaactttaa cagaacagct cagacaaatg
3751 atttcacagc ttttgaccaa tcacaagatg gtgcaatgct tcaatttgaa
3801 gtcatgaagg caaaattctt caatatccct gccgacatca ttgaaggata
3851 catcaacatc aaattgaacg ccaaaatttt ccttggcaca ttgtccatta
3901 tgaggttgtc tggtgaaggt ccaacttttg atgccaacac agaatgttca
3951 atagcatata ctgctacaag ataccatctt gattctacag tcaagcaggt
4001 ttatgctgga gatgatatgg cattagatgg agttgtccaa gaaaaaccct
4051 cttttaaaaa actacagaac cagcttaaac tcacctcaaa gacactattt
4101 ccaaaacagg ttaaaggcga ttatgctgaa ttctgcggtt ggactttcac
4151 tcctggtggt atcattaaaa accctttgaa aatgcatgct tccattatgt
4201 tgcaagaggc aatcggcaat ttacacaccg ctgccagatc gtatgccatt
4251 gacatgaagc attcatacca aatgggtgat gagctgcaca attacttaac
4301 accagatgaa gctgaacaac acttccttgc tgttcggaag ttgcacaagt
4351 tacaccaagg tgaagcaatg agacttgggg aaaagagccc tccaaaagca
4401 acacattgag gggttaagtt ttccccagtt cgaaatggaa agatcaactc
4451 tgattaattt acttcaattg caccacttcg agccaaaact cagtgttgaa
4501 ggaatcatag ttgtgcacgg aattgcaggc actgggaaaa ctactttact
4551 taggacttta ttttctgctt accctagctt agttataggt tcacctaggc
4601 cttgctattt agataaacaa aacaaaattt cacaagtttg cttatcttgc
4651 tttcccaata cccattgtga tattgtcgat gagtatcatt tgctagaaag
4701 ttttccagaa ccaaaattgg ctatctttgg tgacccctgt caatgcacat
4751 acattgagag acttagagtc ccacattaca cttccttcag aactcataga
4801 tttggaaagt caactgctga gattttgaac aaactgtttg accttaatat
4851 agtctcagtt aagaaagaag acgacatcgt tgaattcttt aacccttttg
4901 aagttgaccc cactgagcat atctctgcct ctgaagaaga agtcttggac
4951 tttgtttctg accaagtggt gaccactagc tcagaggaac tagcaggact
5001 tgagtttgca gaaacaactt tctactgcac cacattggcc gcagctgttg
5051 ctgaaaatcc tgctaagact ttcatctctc tgactagaca cacccacaaa
5101 ctcaccattg gggaactaaa tgccaggtct aactcctaga gctgacctca
5151 ctgacacata caaaatcatt gccattgctt tcttgttgtc agcttgcatt
5201 tacttccaaa atagccacta ccaacccgtt gctggagaca acttgcaccg
5251 tttgcctttt ggtggccaat atcaagacgg caccaaaaag atatcttatt
5301 ttccacaaca gcagtcatat tttcattctg gaaacaaatt aaatgtcctc
5351 atacttatct tcattctcac attgggtatc gtcctcacca ataaatttag
5401 ttttagcttt agtcgtacta ctcaccagca ttcttgctat aacacacatt
5451 cagcaaccaa caatacacaa ccattgtcag gtcatcatta acggtgcagc
5501 aatagtcata acaaattgtg agaacacacc agaagtgctt aaagcaatca
5551 acttctcccc ttggaacggg ttaagttttc ctaaatttga aaattaatat
5601 tgagtgttca caaaaatcaa cttcaataaa caatcatgcc tgacacaaca
5651 cctgttgctg ccacttcaag tgcaccaccc acagccaaag atgctggtgc
5701 caaagctcct tctgacttct caaatcccaa tacagctcct agtctcagtg
5751 atttgaagaa agtcaagtat gtctccaccg tgacctccgt ggccacacca
5801 gcggaaattg aagccctagg caaaatcttc accgctatgg gccttgccgc
5851 caatgagact ggtccggcca tgtgggatct agctcgtgca tatgctgacg
5901 tgcagagttc taaatcggca cagctgattg gagccacccc ttccaaccct
5951 gcactatcac gccgagccct tgctgctcag tttgatcgaa ttaatataac
6001 ccccaggcaa ttttgcatgt actttgccaa agttgtttgg aacatacttc
6051 tcgacagcaa cattccacca gcaaattggg ccaaacttgg ttaccaagaa
6101 gatacaaaat ttgctgcatt tgacttcttc gatggagtca ccaaccctgc
6151 cagcctgcag cctgctgatg gtcttatcag gcagccaaat gagaaagaac
6201 tagctgctca ctccgtagct aagtacggcg ccttagctag gcaaaagatc
6251 tccacaggta attatattac cacacttgga gaagtcacac gtggacacat
6301 gggaggagct aacaccatgt acgcgataga cgcaccccct gaactttaaa
6351 cactcgaaac ttaatcagag tggggttttc tacagtttat tttcctaatt
6401 atttctttga aat