Sequence of DPV Pepino mosaic virus
Pepino mosaic virus strain US1_CAHN8, complete genome.
ACC No: JQ314458
Dated: 2012-05-30 | Length: 6414 | CRC: -1589275749
ID JQ314458; SV 1; linear; genomic RNA; STD; VRL; 6414 BP.
XX
AC JQ314458;
XX
DT 26-APR-2012 (Rel. 112, Created)
DT 30-MAY-2012 (Rel. 112, Last updated, Version 2)
XX
DE Pepino mosaic virus strain US1_CAHN8, 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 1-6414
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 1-6414
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. .6414
FT /organism="Pepino mosaic virus"
FT /host="Solanum lycopersicum (tomato)"
FT /strain="US1_CAHN8"
FT /mol_type="genomic RNA"
FT /country="USA"
FT /collection_date="24-Sep-2009"
FT /note="genotype: US1"
FT /db_xref="taxon:112229"
FT 5'UTR 1. .84
FT gene 85. .4404
FT /gene="rep"
FT CDS 85. .4404
FT /codon_start=1
FT /gene="rep"
FT /product="replicase"
FT /note="RNA replication"
FT /protein_id="AFI25319.1"
FT /translation="MSRVRNTLEKIRDPQVQSSICEAAYQHVRPVLKESLINCPYALND
FT YEADTLENLGVTINPHAIQTHTHAAAKVVENRMLEIVGHHLPKDEKVTFIFLKRSKLRY
FT MRRAAVHKDVFVNHNIEPKDFFRYDEESTSTSFSVNTRIAYISDSLHFMEPADVTHLFD
FT RCQNLKTLMATVVLPVEAIHRQTSLFPAIYSINYNEEGFEYIPGSHGGGAYFHKYETLD
FT WLKYSRFIGHDPLTGLKYTITIQMVESLGANHLFLFQRGNFETPLYRTFQKNSFVTFPN
FT IFHPRHVNATKPMPRSRAIQLYLYVKSVNKVTQRDIFAKVRQLISTAELELYDPDELTH
FT VVNYFSYVSQLSSINDYDNMLKSSFFKKLVAPMQHDWRCMIEFFRGKSDFNQLLTALQW
FT KDFSYTIKTEELIITTHTAIGQAISGAANTYKERRQLTQLVKQGVISLADFQSEEPKIE
FT YTEFERETKPPVDCVTNYNNAVKNLGLSEPVDLPECSYARNSVPNNEISMAMTDADNFA
FT VINEIESLLSEEIAAPTLPALKNKTWASYASDTSSKKNEEIENIIAELEASRKVSNVQQ
FT TQHNYHISQCPTSLTADLPWKAWLPLLNAHGFKGDQIQHSPDGQIIQPIQDINNKTPRS
FT EYPSSIPADLVSTLRNIKRAVYAIPISHRRASAYSSDVKNNRTGKLLCAQSKEWKESFA
FT FKMQHEDIVKSGVVIHGCGGSGKSQALQNFLRTLGDNNDCCTVVVPTVELRNDWVNKLC
FT KLPMEHIKTFEKAMIQPGFPVVIFDDYTKLPPGYIEAYLFHHANTELFILTGDSRQSVY
FT HESNNEAYIASLDEAVAYYSNYCGFYLNATHRNVRSLANKLGVYSEKEGHLKITFASNA
FT LQKCKVPILVPSQMKKNAMQDIGHKAMTYAGCQGLTAPRVQILLDNHTQHCSDRVLYTC
FT LSRAVDSIHFINTGPNNSEFWDKLEATPYLKAFIDTYRDEKTEMLNSKPADDSPVEPEA
FT PATHFPVSNGNNLEKLASTLPEKFAREIYDKHHGYSNTIQTENPIVQLFQHQQAKDETL
FT FWATIEARLSITTPDANLREFTLKKDVGDILFFNYHSAMCLPADPVDFEPRTWEICAAE
FT VKNTYLAKPMANLINAASRQSPDFEPNKISLFLKSQWVKKVEKLGAIKSKPGQTIAAFM
FT QQTVMLYGTMARYLRKMRQRFQPKHIFINCETTTDDLNNFVLNGWNFNRTAQTNDFTAF
FT DQSQDGAMLQFEVMKAKFFNIPADVIEGYINIKLNAKIFLGTLSIMRLSGEGPTFDANT
FT ECSIAYTATRYHLSSAVKQVYAGDDMALDGVVMEKPSFKKLQSKLKLTSKTLFPKQVKG
FT DYAEFCGWTFTPGGIIKNPLKMHASIMLQEAIGNLHTAARSYAIDMKHSYQMGDKLHEY
FT LTPDEAEQHFLAVRKLHKLHQGEAMRLGEKSPPKATH"
FT gene 4429. .5133
FT /gene="tgbp1"
FT CDS 4429. .5133
FT /codon_start=1
FT /gene="tgbp1"
FT /product="triple gene block protein 1"
FT /protein_id="AFI25320.1"
FT /translation="MERSTLINLLQLHHFEPKLSVEGVIVVHGIAGTGKTTLLRTLFSA
FT YPNLVIGSPRPCYLDKANNISQVCLSCFPKTLCDIVDEYHLLESYQEPTLALFGDPCQC
FT TFIGRLRIPHYTSFRTHRFGKSTAELLNKLFQLQIVSVKQEDDIVEFFDPFQVDPTENI
FT SASEEEVLEFVSDQVVTTSSEELAGLEFTETTFYCTTLAAAVTENPARTFISLTRHTQR
FT LTIGELNARIDS"
FT gene 5114. .5485
FT /gene="tgbp2"
FT CDS 5114. .5485
FT /codon_start=1
FT /gene="tgbp2"
FT /product="triple gene block protein 2"
FT /protein_id="AFI25321.1"
FT /translation="MPGLTPRADLTDTYKIIAIAFLLSACIYFQNSHYQPVAGDNLHRL
FT PFGGQYQDGTKKISYFPQQQSYFHSGNKLNVLILIFILTLGIVLTNKFSFSVSRTTHQH
FT SCYNTHSAANTTPPLSGHH"
FT gene 5337. .5585
FT /gene="tgbp3"
FT CDS 5337. .5585
FT /codon_start=1
FT /gene="tgbp3"
FT /product="triple gene block protein 3"
FT /protein_id="AFI25322.1"
FT /translation="MSSYSSSFLHWVSSSPINLVLALAVLLTSILATIHILQPTQLHHC
FT QVIIDGAAIVVTNCENTPEVLKAINFAPWNGLSFPSV"
FT CDS 5632. .6345
FT /codon_start=1
FT /product="coat protein"
FT /protein_id="AFI25323.1"
FT /translation="MVDNTPVAATSGSPPTAQDAGAKAPADFSNPNTAPSLSDLKKVKY
FT VSTVTSVATPTEIEALGKIFTAMGLAANETGPAMWDLARAYADVQSSKSAQLIGATPSN
FT PALSRRALAAQFDRINITPRQFCMYFAKVVWNILLDSNIPPANWAKLGYQEDTKFAAFD
FT FFDGVTNPASLQPADGLIRQPNEKELAAHSVAKYGALARQKISTGNYITTLGEVTRGHM
FT GGANTMYAIDAPPEL"
FT 3'UTR 6346. .6414
XX
SQ Sequence 6414 BP; 2049 A; 1463 C; 1153 G; 1749 T; 0 other;
jq314458 Length: 6414 30-MAY-2012 Type: N Check: 3298 ..
1 gaaaacaaaa cataaccaaa acaacaaagt cataataaca ctacataacc
51 acgcggaaaa acagctaacg cactttaccg cattatgtct cgtgttagaa
101 atactttgga aaagatcaga gaccctcaag tacagtcaag catatgcgaa
151 gcagcatacc aacatgttcg accagttttg aaggaatctc taatcaattg
201 tccctatgcg ctcaatgatt atgaagccga cacccttgag aatttaggtg
251 tcacaattaa ccctcatgca attcaaaccc atacacacgc agcagctaaa
301 gtggttgaaa acagaatgct agagattgtt ggtcaccatc taccaaaaga
351 tgagaaggtt accttcattt tcctaaaacg tagtaaattg cgttacatga
401 gaagagctgc tgttcataaa gatgtttttg tcaaccataa catagagccc
451 aaagattttt ttaggtatga cgaggagtcc acatcaacaa gcttctccgt
501 gaatactaga atcgcataca tttcagattc cttacatttc atggagccag
551 ctgatgttac acaccttttt gaccgttgcc aaaatcttaa aacattaatg
601 gcaaccgttg tcctacctgt tgaagcaatt catagacaaa catctttatt
651 tcctgcgata tactccatta actacaatga agaaggcttt gagtatatcc
701 ctggttccca tggtggtggg gcatactttc acaagtatga gaccttagac
751 tggcttaaat attccagatt cataggacat gatccattga ctggcctcaa
801 atataccatt acaattcaaa tggttgaaag tctaggcgcc aaccaccttt
851 tccttttcca aagaggaaat tttgaaacgc ccttatatag gacctttcaa
901 aaaaatagtt ttgtgacatt ccctaatata tttcatcccc gacatgttaa
951 tgccacaaaa cctatgccac gctccagggc aatccaattg tacttatatg
1001 ttaagtctgt caacaaagtc acacaaagag acatctttgc aaaagttaga
1051 cagcttatat ccacagctga gctggaactg tatgaccctg atgagcttac
1101 tcatgttgtc aattactttt catatgtttc acaattgtca tctataaatg
1151 attatgacaa catgctaaaa tccagtttct tcaagaaatt ggttgcaccc
1201 atgcaacacg actggaggtg catgattgaa ttcttccggg gaaagagtga
1251 tttcaatcaa cttctcaccg ctcttcaatg gaaagatttc tcctatacta
1301 tcaaaactga agagctaata attactacac acactgccat tgggcaagct
1351 ataagtggag cagctaatac ttataaggaa agaaggcaat taacacaact
1401 ggtcaagcaa ggagtgattt cactcgctga ttttcaatct gaagagccca
1451 aaatagaata caccgaattc gagcgagaaa caaaaccacc agttgattgt
1501 gtgactaatt acaacaatgc tgttaagaac cttggcctgt ctgaaccagt
1551 ggatctgcca gaatgctcat acgctagaaa ctctgttcct aacaatgaga
1601 tatctatggc tatgactgat gctgacaact tcgctgttat aaatgaaatt
1651 gaatctctct tgtctgaaga aatcgcagca ccaacacttc cagcattgaa
1701 aaataaaaca tgggctagtt atgcatctga cacttcatca aagaagaatg
1751 aagaaattga aaatataatt gctgagctag aagcttcacg taaggtctcc
1801 aatgtccagc aaacacagca caactaccat atctcacaat gccccacttc
1851 cttaactgct gatcttccat ggaaagcctg gctcccactt ctcaatgccc
1901 atggtttcaa aggagatcag atccaacata gtcccgacgg ccaaataatc
1951 caaccaattc aggacatcaa caataaaaca ccaagatctg aatacccatc
2001 tagcatccct gcagatcttg tttcaacctt gcgcaatatt aaaagagcag
2051 tttatgctat tcctatcagc cacagaaggg ccagcgctta tagctcagat
2101 gttaaaaata acagaactgg aaaactgctc tgtgctcaat ccaaagaatg
2151 gaaagagagt tttgctttca aaatgcaaca tgaagacata gtcaaatctg
2201 gtgttgtcat acatggttgt ggcggctccg gaaaatcaca agcattgcaa
2251 aacttcctta gaactttggg tgacaataat gactgctgta cagttgttgt
2301 ccccacagta gagctcagga atgactgggt taacaaattg tgcaagttgc
2351 ctatggaaca catcaaaaca tttgaaaaag caatgattca accaggcttt
2401 cctgttgtta tttttgacga ctatactaag ctgccacccg gttacattga
2451 agcttatctg ttccatcacg ccaacactga actcttcatc ctcactggtg
2501 actctagaca aagtgtatat catgagtcca acaatgaagc ttacattgcc
2551 tctcttgatg aagctgttgc ctactactcc aactactgtg gtttctattt
2601 gaacgctacg cacagaaatg tacgtagttt agctaacaag ttgggagtgt
2651 acagtgaaaa agaaggacac ctcaaaatta cttttgcatc caatgctcta
2701 caaaaatgca aagtacccat cttggtgccc tctcagatga agaaaaatgc
2751 aatgcaagac attggccata aagcaatgac ttatgcagga tgtcaaggac
2801 ttactgctcc aagagttcaa attttgcttg acaaccacac acagcattgc
2851 tcggacagag ttctttacac atgtctttca cgagctgtgg attctatcca
2901 ttttatcaac actggcccca acaattctga attttgggat aagcttgaag
2951 ctacaccata cctcaaagcc tttattgata cataccggga tgaaaagact
3001 gagatgttga attcaaaacc tgcagatgac agccctgtgg aacctgaagc
3051 tcctgctact catttccccg tttctaacgg caacaactta gagaaattag
3101 cttcaacact acctgaaaag tttgctcggg agatctatga taaacatcat
3151 ggttattcca acaccataca aacagagaac cccatagtac aacttttcca
3201 acatcaacag gcaaaagatg aaactctctt ttgggcaaca attgaggcaa
3251 gactttctat aaccacacca gacgccaacc tcagagaatt tactttgaag
3301 aaagacgttg gagatattct gttctttaac tatcactcag caatgtgtct
3351 gccagctgac cctgtcgact tcgagccaag aacttgggaa atatgtgcag
3401 ctgaagtcaa gaatacatac ctagcaaaac caatggctaa tttgataaat
3451 gccgctagtc gacaatctcc tgacttcgag cctaacaaga tctcactgtt
3501 tttaaagtca caatgggtta agaaagtaga gaaattggga gcaatcaaat
3551 caaagcctgg gcaaacaatt gcggctttta tgcagcaaac cgttatgctg
3601 tacggaacta tggctagata cttaagaaaa atgagacaaa gatttcaacc
3651 aaaacacatt tttatcaatt gtgaaactac aactgatgat ctgaataatt
3701 ttgttctcaa tggttggaac tttaatcgaa ctgctcagac taatgatttc
3751 actgcatttg atcaatccca agatggagct atgttacaat ttgaagtcat
3801 gaaggctaaa ttcttcaaca ttcctgcaga cgtgattgaa gggtatatca
3851 acattaagct taacgctaaa attttcctag gtaccctttc aattatgagg
3901 ttatcaggtg aaggtcccac atttgatgca aacactgaat gctctattgc
3951 ttacacagca acaagatacc atctgagttc agcagtgaaa caagtttacg
4001 ctggtgatga catggctctt gacggagtgg tcatggaaaa accctccttt
4051 aagaaattac agagcaagct taaattgaca tcaaaaacat tgtttccaaa
4101 acaagttaag ggtgattatg ccgaattttg tgggtggact tttaccccag
4151 gtgggattat taaaaatcct ttgaaaatgc atgcatccat catgttacaa
4201 gaagcaatag gtaacctcca cactgctgct aggtcatatg caatagacat
4251 gaagcattca taccaaatgg gagataaatt gcatgaatac cttactcctg
4301 atgaagctga gcaacatttc ttggctgttc gcaaattgca caaactccac
4351 caaggtgaag ccatgagact tggggagaag agccccccaa aagcaacaca
4401 ttgacgggtt aagtttcccc tgttcgaaat ggaaagatcc actctaataa
4451 atttacttca actgcaccac tttgaaccta aactcagcgt tgaaggagtt
4501 attgttgtac acggaatcgc tggaacaggg aaaactaccc tacttagaac
4551 tttattttcc gcttacccga acttagttat aggatcacct aggccttgtt
4601 acttagataa agctaataat atttcacaag tttgtttatc ttgctttcca
4651 aaaacccttt gtgatattgt cgatgagtac catcttctag aaagttacca
4701 agaacctact ttggctttgt ttggagaccc ttgtcagtgt actttcattg
4751 gaagacttag aattccacac tacacttcct tcagaacaca tagatttggc
4801 aagtctactg cagagctttt aaacaagttg tttcaacttc aaattgtctc
4851 tgtaaaacaa gaagacgaca tagttgaatt ctttgaccca tttcaagtag
4901 acccaactga aaatatttca gcatctgagg aagaagtttt ggaatttgtc
4951 tctgatcaag tagtgacaac cagctctgaa gaattagcag gattggagtt
5001 cactgaaacc actttctact gcactacact agctgcagca gtcactgaaa
5051 atcctgccag aactttcatc tccttaacca gacacactca gagactcacc
5101 attggcgaac taaatgccag gattgactcc tagagctgac ctcactgaca
5151 cctacaagat aattgctatt gcctttttgt tgtcagcttg catttacttc
5201 caaaacagcc attaccaacc tgttgctgga gataatctgc atagattgcc
5251 atttggtggc cagtatcaag acggcaccaa gaagatatca tattttcctc
5301 agcaacaatc atactttcac tctggtaaca aattaaatgt cctcatactc
5351 atcttcattc ttacattggg tatcgtcctc accaataaat ttagttttag
5401 cgttagccgt actactcacc agcattcttg ctacaataca cattctgcag
5451 ccaacacaac tccaccattg tcaggtcatc attgacggag ctgccatagt
5501 tgttactaat tgtgaaaaca cgcctgaagt tctaaaagca atcaacttcg
5551 ccccttggaa cgggttaagt tttcctagtg tttgaaaatt aacttcgagc
5601 acttcacaat taagctaaca attcactaat catggttgac aataccccag
5651 ttgctgctac ttctggttcc cctccaactg ctcaagatgc tggtgccaaa
5701 gcccctgctg acttttcaaa tcctaataca gctcctagcc tcagtgattt
5751 gaagaaagtc aagtatgtgt ccacagtcac ttcagtggca acaccaactg
5801 aaatagaagc cctcggaaag atcttcaccg ccatgggact ggctgctaat
5851 gaaactggac ccgctatgtg ggatctagcg cgtgcttatg ctgatgtcca
5901 aagttcaaaa tccgcacaac tcataggtgc caccccctca aatccagcac
5951 tctcacgccg cgcacttgct gcccaatttg atcgtattaa catcacaccc
6001 aggcagtttt gcatgtattt tgctaaagtt gtctggaaca ttctgctaga
6051 cagcaatatc ccaccagcaa actgggccaa gcttggttac caagaagaca
6101 caaaatttgc tgctttcgat ttcttcgatg gagtcaccaa tccagcaagt
6151 ttgcaaccag ctgacggcct catccggcaa cccaatgaaa aggagcttgc
6201 tgctcactca gttgctaagt atggtgcact agccaggcag aaaatttcta
6251 ctggcaacta cataaccaca cttggagagg tcacacgtgg acacatggga
6301 ggagctaaca ccatgtacgc aattgatgca cccccagaac tttaaaacac
6351 tcgaaactta attagagtgg ggttttctat agtttatttt cccaataaat
6401 tgcttttgta attt