Sequence of DPV Pepino mosaic virus
Pepino mosaic virus isolate VFTX12-19, complete genome.
ACC No: JX866667
Dated: 2013-04-19 | Length: 6400 | CRC: -681709753
ID JX866667; SV 1; linear; genomic RNA; STD; VRL; 6400 BP.
XX
AC JX866667;
XX
DT 19-APR-2013 (Rel. 116, Created)
DT 19-APR-2013 (Rel. 116, Last updated, Version 1)
XX
DE Pepino mosaic virus isolate VFTX12-19, 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 1-6400
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 1-6400
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
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. .6400
FT /organism="Pepino mosaic virus"
FT /host="Solanum lycopersicum"
FT /isolate="VFTX12-19"
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 /protein_id="AFZ88263.1"
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 /protein_id="AFZ88264.1"
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 /protein_id="AFZ88265.1"
FT /translation="MPGLTPRADLTDTYKIIAIAFLLSACIYFQNSHYQPVAGDNLHRL
FT PFGGQYQDGTKKISYFPQQQSYFQSGNKLNVLILIFILTLGIVLTNKFSFSISRNTHQH
FT HCYNTHSATQTGQSMPGHH"
FT gene 5336. .5584
FT /gene="tgbp3"
FT CDS 5336. .5584
FT /codon_start=1
FT /gene="tgbp3"
FT /product="triple gene block protein 3"
FT /protein_id="AFZ88266.1"
FT /translation="MSSYSSSFLHWVLSSPINLVLALAVILTSIIATTHILQPKQVNQC
FT QVIIDGAAIVITNCPNTPEVLKAINFSPWNGLSFPQL"
FT CDS 5630. .6331
FT /codon_start=1
FT /product="coat protein"
FT /protein_id="AFZ88267.1"
FT /translation="MENQPTSEVPPTAAQAGAQSPADFSNPNTAPSLSDLKKIKYVSTV
FT TSVATPAEIEALGKIFTAMGLAANETGPAMWDLARAYADVQSSKSAQLIGATPSNPALS
FT RRALAAQFDRINITPRQFCMYFAKIVWNILLDSNVPPANWAKLGYQEDTKFAAFDFFDG
FT VTNPASLQPSDGLIRQPNEKELAAHSVAKYGALARQKISTGNYITTLGEVTRGHMGGAN
FT TMYAIDAPPEL"
FT 3'UTR 6332. .6400
XX
SQ Sequence 6400 BP; 2050 A; 1454 C; 1154 G; 1742 T; 0 other;
jx866667 Length: 6400 19-APR-2013 Type: N Check: 525 ..
1 gaaaacaaaa cataacacat aatatcaaaa gtgaccaaac acaacataac
51 cacgtggaaa aacagcgaaa gcactttacc acattatgtc tcgtgttaga
101 aacactttag aaaagatcag ggacccacaa gtacaatcta gcatttgtga
151 agccgcttac caacatgtta gacctgtgct caaggaatcc ctaatcaact
201 gtccttatgc gcttaatgac tatgaagcag acacccttga gaatttaggt
251 gtcacaataa acccccatgc aatccaaaca catactcatg cggcagctaa
301 agttgtggaa aatagaatgc tcgaaattgt tggacaccac ttgcccaagg
351 acgagaaagt taccttcatt ttcctaaaaa gaagcaaact gagatacatg
401 cgaagagctg ctgtacataa agatgttttt gttaatcaca atatagaacc
451 caaggatttc ttcaggtatg atgaggaatc tacatctact agtttctccg
501 tgaacaccag gatcgcttac atctccgatt ctctacattt catggaacca
551 gctgatgtga cccacctctt tgaccgttgc cacaatctta aaacactgat
601 ggcaactgtt gttttacctg ttgaagccat ccacaaacaa acatctttat
651 ttccagcgat atactccatt aattacaatg aagaaggttt tgagtatatc
701 cctggttctc atggtggagg ggcatacttt cacaagtatg aaacattaga
751 ctggctcaaa tactctagat tcgttggcca ggacccctta actggactcc
801 gatacacaat aaccattcaa atggtggaga gtttaggagc caaccatctt
851 ttcctcttcc aaagaggaaa ttttgaaaca cctttataca gaacgtttca
901 aaaaaatagc tttgtgacct ttcctaacat cttccatccc caacatgtta
951 atgccacaaa gcccatgcca agatccaggg caattcagct gtatttatat
1001 gtcaaatctg tcaataaggt gacacaaaga gatatctttg cgaaagtaag
1051 gcaacttata tctacagctg aacttgagtt gtatgaccct gacgaactta
1101 cacatattgt caattatttc gcatatgtct cagaactaag ctcaatcaac
1151 gactacgaca atatgctcaa atcaagtttt ttcaaaaaac ttgttgcacc
1201 catgcaacat gactggaggt gcatgattga attctttcgg ggaaaaagtg
1251 atttcaatca acttttaact gctcttcaat ggaaagactt ctcttacacc
1301 attaaaactg aagagttagt tattgctaca cacactgaaa ttggccaggc
1351 aatctgtaaa gctgcgacca catacaaaga aagaagacaa ttgaccaatt
1401 tagtcaaaca aggcgcagta acattagctg atttcaaaga agcggaccag
1451 catgtggagt acactcactt tgatcctgag tttaaatcca ctgttgaccc
1501 ccaccggagc tatgaaaatg ccatcaacaa tcttggcatt gagattaatg
1551 aggatgtacc tgaaagttcc ggcactaatg aaacattgct aaacaatgaa
1601 atatctttag caatgtcatc tgctgaacat gtgcaagctg ttcaagaaat
1651 tgagtcttta ctctctaacc ccgaagcggc accaatattg ccccctgcac
1701 atgttaaaac atgggctagc cttgcatctg acacttcaag cactaaaaac
1751 cgtgaaatcg aagatatagt ggctaagctg gaaatacaaa gaaatgaagc
1801 tagttgcagc taccttcaac caaataagga attgtcaaaa cccaaggctg
1851 ccgataacaa tctcccctgg aatgcttgga tcccattgct taatgcacac
1901 ggcttcaaag gagatcaatt acaatacggc ccagatggta acttgataca
1951 gcccatccaa gacattaaca attcacagcc tagatctgac tatccgtctt
2001 ctctgccatg tgaacttgtg gaaactttga ggaaaattaa gcgtgctgtc
2051 tatgccatcc caataagcca caggagggct agtgcttaca gttctgacat
2101 caaaaataac agaactggca aacttctctg caaccaaagc aaagaatgga
2151 aagaaagctt tgctttcaaa atgcaacatg aagacatcgt caaatcaggt
2201 gttgtcatac atggttgcgg aggttctggc aaatcccagg cattacaaaa
2251 cttcttgaga acattgggtg attcaaatga ttgctgtact gttgtagtac
2301 ccactgttga gcttagaaat gactgggtaa acaaactcca taaattgccc
2351 atggagcata tcaaaacatt tgagaaagca atgattcaac ctggctttcc
2401 aattgttata tttgatgatt acaccaagtt gccacccggc tacattgaag
2451 catacctatt tcaccatgcc aacactgagc ttttcatact tactggtgat
2501 tctaggcaaa gcgtgtacca tgaatctaac aatgaagcgt acattgcctc
2551 attagatgaa gctgttgcat actacgctaa ttactgcggt ttttatttaa
2601 atgctactca tagaaatgtc cgtagtttag ccaacaaact tggtgtttac
2651 agtgagaaag aaggacactt gaaaatcact tttgcttcac atgccttaca
2701 aaagtgcaaa gtgccaattt tagttccttc tcaaatgaaa aagagtgcta
2751 tgttagacat tggacataaa tccatgacct atgctggttg ccaaggttta
2801 acagcaccca aggtacaaat tctccttgat aaccacacgc aacattgctc
2851 tgacagagtt ctgtacacct gtctgtctcg tgcagtcgat tccatccact
2901 tcatcaatac tggtcccaac aattcagaat tttgggataa gcttgaagca
2951 acaccatatc tcaaagcctt cattgatgtc tatagagatg aaaaaactga
3001 aatgctcaat tctaagcctg ctgatgacag cccaactgag cctgaagcac
3051 ctgttacaca tttcccaata gcaaatggaa ataacttaga gaaattagct
3101 tctgctttgc ctgaaaaatt tgctagggag atttatgaca agcatcatgg
3151 ccactccaac acaatccaaa ctgagaaccc tgtggtccaa cttttccaac
3201 atcaacaagc gaaagacgag acactctttt gggctacgat tgaagctaga
3251 ttgtccataa caactcctga agcaaacctc agagaatttt tgcttaagaa
3301 agatgttgga gacgttctct tcttcaatta ccataatgcg atgtgcttgc
3351 ctgctgaccc tgttgacttt gaagaaaaga cctgggagat ctgtgctgct
3401 gaagtgaaaa acacttatct tgccaaaccc atggccaatc ttatcaatgc
3451 ggcaagtaga caatcacccg actttgactc taataagatc tcattattcc
3501 taaagtctca atgggtgaaa aaagtggaaa aacttggagc tatcaaatca
3551 aaacctggtc agaccatagc tgcttttatg caacaaacag tcatgttgta
3601 tggtactatg gccaggtact taagaaaaat gcggcaaaga ttccagccaa
3651 aacacatatt catcaattgt gaaaccacaa ctgatgatct caataaattt
3701 gtcaaagatg gctggaactt taacagaacc gcccaaacaa atgacttcac
3751 tgcttttgat cagtcacaag atggagcaat gctgcaattt gaagtcatga
3801 aagcaaaatt ttttaacatt ccagctgatg tcattgaagg ctacatcaac
3851 atcaagctga atgctaaaat tttccttgga acactctcaa taatgagact
3901 ttctggtgaa ggtcccacat ttgacgctaa cactgagtgt tcgattgcat
3951 acactgccac aagattccat attgacaata ctgttaagca agtgtatgcc
4001 ggtgacgaca tggcattaga tggagttgtg agtgaaaaga aatcattcag
4051 gaagttacaa aatctactaa aactcacttc aaaaacgctg tacccaaaac
4101 aggttaaagg ggattacgct gaattttgtg gttggacttt cacaccaggg
4151 ggtataatta aaaatccact taaaatgcat gcctcaatta tgctgcaaga
4201 agccattggc aatctgcaca cagcagccag atcttatgca attgacatga
4251 agcattcata ccaaatgggt gaccaactgc atgactacct aacccccgat
4301 gaagctgaac aacatttcct agctgtgaga aagcttcaca aactccatca
4351 aggcgaggcc atgcgtcttg gggagaaaag tccaccaaga tcaacccatt
4401 aaggggttaa gttttcccca gtttgaaatg gaaagatcaa ctttgatcaa
4451 tttacttctg ttacacaaat ttgaacacaa gattaacact gaaggaatca
4501 ttgttgtgca cggaattgct ggaactggga aaaccacatt gcttaggact
4551 ttattttctg cataccctag cttagttata ggttcaccta ggccttgtta
4601 cttagataaa gctaataaaa tttcacaagt ttgcctttct tgttttccaa
4651 ataccttgtg tgacattgtt gatgagtacc atctcttaga aagttttcct
4701 gaaccaaaac tagccatttt tggtgacccc tgtcagtgca cttacattga
4751 aaggttgaga acacccaact acacatcctt cagaacacac cgatttggca
4801 aatccactgc tgctctacta aataagttat ttgatcttaa cattgaatca
4851 gtcaaagcac aagacgacac agtagaatac tttgatcctt ttgcagtgga
4901 cccctctgaa cacatttctg cttcagaaaa agaagttttg gaattcgtag
4951 gtgatcaagt tgagactaca agctctgaag aactagctgg tctcgagttt
5001 tgtgaagtta ctttctactg taccacactt gctggtgctg ttcaagaaaa
5051 tcctgccaaa accttcattt cactcactag acacacttca aagctcacaa
5101 ttggtgaact aaatgccagg tctgactcct agagctgatc ttactgacac
5151 gtataaaatc attgctatag cctttctact gtcagcttgc atttacttcc
5201 aaaacagtca ttatcaacca gttgcaggtg ataatttgca cagactaccc
5251 tttggtggtc agtatcaaga cggaactaag aagatttctt actttccgca
5301 gcaacaatcc tactttcaat caggaaacaa gcttaatgtc ctcatactca
5351 tcttcattct tacactgggt attgtcctca ccaataaatt tagttttagc
5401 attagccgta atactcacca gcatcattgc tacaacacac attctgcaac
5451 ccaaacaggt caatcaatgc caggtcatca ttgacggtgc agccatagtt
5501 ataacaaatt gtccaaacac acccgaagtt cttaaagcta tcaacttctc
5551 cccttggaac gggttaagtt ttcctcaatt gtgaaatcat atttgttatc
5601 tagttaaatt caaacaattt aactcaacta tggaaaacca acctacatca
5651 gaagtaccac caactgctgc tcaagctggt gcccagagcc cagccgactt
5701 ctcaaatcct aatacagctc cttccctaag tgatttgaag aagatcaaat
5751 acgtgtcaac tgtcacttca gttgccactc ctgctgaaat tgaggccctt
5801 ggcaagatct ttactgccat gggtttagca gccaatgaga ccggacctgc
5851 catgtgggac ctcgctcgtg cttatgctga tgtgcaaagt tcaaaatctg
5901 cacaacttat aggtgccaca ccatccaacc ctgctttgtc tagacgtgca
5951 cttgctgcac agtttgatcg tatcaatatc acacccagac aattctgcat
6001 gtattttgca aaaattgttt ggaacatact gttagacagc aatgtgccac
6051 ctgccaactg ggcaaaattg ggctatcagg aagataccaa gtttgctgct
6101 tttgacttct ttgatggagt cacaaatcca gctagtctac agccttctga
6151 tggcctaatc aggcagccca atgaaaaaga gcttgctgct cactcggttg
6201 ctaaatatgg tgcccttgcc cgccagaaaa tatccactgg taactacatc
6251 accacccttg gtgaagttac acgtggtcac atgggcggcg ctaacactat
6301 gtacgcaatt gatgcacctc ctgaacttta aacactcgaa acttaatcag
6351 agtggggttt tctatagttt attttccctt agtatctaaa tctactaaat