LOCUS MN216384 3411 bp RNA linear VRL 01-DEC-2019 DEFINITION Southern tomato virus isolate Tom1-T RdRp and coat protein genes, complete cds. ACCESSION MN216384 VERSION MN216384.1 KEYWORDS . SOURCE Southern tomato virus ORGANISM Southern tomato virus Viruses; Riboviria; Orthornavirae; Pisuviricota; Duplopiviricetes; Durnavirales; Amalgaviridae; Amalgavirus; Amalgavirus lycopersici. REFERENCE 1 (bases 1 to 3411) AUTHORS Ma,Y., Marais,A., Lefebvre,M., Faure,C. and Candresse,T. TITLE Metagenomic analysis of virome cross-talk between cultivated Solanum lycopersicum and wild Solanum nigrum JOURNAL Virology 540, 38-44 (2019) PUBMED 31734382 REMARK Publication Status: Available-Online prior to print REFERENCE 2 (bases 1 to 3411) AUTHORS Ma,Y., Marais,A., Lefebvre,M., Faure,C. and Candresse,T. TITLE Direct Submission JOURNAL Submitted (23-JUL-2019) Virology, INRA, 71 avenue E. Bourlaux CS20032, Villenave d'Ornon Cedex, Villenave d'Ornon 33882, France COMMENT ##Assembly-Data-START## Assembly Method :: IDBA-UD v. 1.1.3; CLC Genomics Workbench v. 11 Sequencing Technology :: Illumina; Sanger dideoxy sequencing ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..3411 /organism="Southern tomato virus" /mol_type="genomic RNA" /isolate="Tom1-T" /host="Solanum lycopersicum" /db_xref="taxon:591166" /geo_loc_name="France" /collection_date="Sep-2017" 5'UTR <1..136 CDS join(137..981,983..3326) /ribosomal_slippage /note="coat protein-RNA dependent RNA polymerase fusion protein" /codon_start=1 /product="RdRp" /protein_id="QGN75810.1" /translation="MAGVGGSAAGRVPNAANVPLTAKEKERTVMREIVEIGETFVELG IDKRYFQRTTYVSHMLLPNQYFKLLKQFKGKTAEELDLALGAAVAHGVLRSMRGITFK KFFDFLNWVKTKEGKDALGETMYAQKLEQKGRGDFSIAEVALLHCFETQRNDMLRDEK DVRLKAEEEIADLQRKIVKRREKLEEDLIATKSNYEPVSRYVGLSDYELNCKCWSLYQ QFNPDKVTAGAKPTRKQVKEAFDMYAEFVAKTNRLEFLKHGNVKDELQAFINAKILGY EQLGDKGRVVILGVSWQQWVLRWIMKWNQRTRKRLLKNLPVGKLRRGKEMTPCRPLSE IIPMERLEEKRTLQYKLPPQLSRATEVEAEAVSLLYPNARIEVEVRPIGRDTRAIPFS RSRWEVGVRKVIGGGEVLNWDIDGNKYRGGGCFADAIKLLAGATQRPPQRLLEDCYTI TTAREALGLPSDLAVPSGKGSCHVRNYNDDATSGPFLWSFGIKKKYGLDKLLQSLMED IYCHYSISEATDRALPYFAARVGFRSKLLTMGEAVKKFTECAPMGRCVMMLDALEQFA SAPLYNVLSKYTAERSRGQTSFRNTVVRASSDWMHFWDEVKEAAVCVELDWSKFDRER PSEDLDFMIKVICSCFRPKDEVEAKLLRGYGVCMRRALVERRLITDDGGVIHIDGMVP SGSLWTGWLDTALNILYIKSVLRSIDILEEEAVPKCAGDDNLTVFSKDPGDEVLEEMR VKLNDYFRAGIKKEDFIITRPPFHVRTFQAVFKEGTDLSKGTSKIMKKAYWREFEDEL RIDQEKGLSHRWEYRFKGAPKFLSCYWLEDGRPIRPSHENLEKLLYPEGVHANIDDYI AAVLSMVVDNPFNHHNINHLKHRYIIANQVKRLSAAGGRCEDILRLARIREREDEEVP VPQIAVWRRVKEYVDLDSYEPAKYYIQDFNAFVSGVTSLYARSSTGGLDAYKVMDLIR GNATIGRGQWGNDVMDWIRFVRDHPATKYLKGAKRFREQHNQEPTTAKPSKDARRAIK LLRNSLINEAYADSNSFAISISERLRRKKPTR" CDS 137..1270 /codon_start=1 /product="coat protein" /protein_id="QGN75811.1" /translation="MAGVGGSAAGRVPNAANVPLTAKEKERTVMREIVEIGETFVELG IDKRYFQRTTYVSHMLLPNQYFKLLKQFKGKTAEELDLALGAAVAHGVLRSMRGITFK KFFDFLNWVKTKEGKDALGETMYAQKLEQKGRGDFSIAEVALLHCFETQRNDMLRDEK DVRLKAEEEIADLQRKIVKRREKLEEDLIATKSNYEPVSRYVGLSDYELNCKCWSLYQ QFNPDKVTAGAKPTRKQVKEAFDMYAEFVAKTNRLEFLKHGNVKDELQAFINAKILGY EQLGDKGKSRYLRRQLAAMGVEMDHEVESEDEEEAAEEPAGGEAEEGEGDDPLQATVG DNPDGEARGEEDTAVQVASPAVTRNRGRGRGRVTPLSQRKDRG" 3'UTR 3324..>3411 BASE COUNT 914 a 649 c 1000 g 848 t ORIGIN 1 ataaatttag taagctacct agcggaatta agaactttca caaaagggtg aggtcattca 61 cgatttactg tgaaacatcc agtgagagtc agatttctcg tcgttgcttc cgttgcctca 121 gtttagatat tccaatatgg ctggtgtcgg aggttccgcg gcggggcgtg ttccaaacgc 181 tgccaacgtt cctcttacgg cgaaggagaa ggagaggaca gtgatgaggg agatagttga 241 gataggggag accttcgtcg agttgggtat cgacaagcgc tactttcaga gaacaactta 301 cgtctcccac atgctactac ctaatcagta cttcaagttg ctcaagcagt tcaaagggaa 361 gactgctgag gagttagatt tagcattggg ggccgccgtc gctcatggag tgttgaggag 421 catgcggggc ataactttca agaagttctt tgacttcttg aactgggtta agacgaagga 481 gggaaaggat gcactgggcg agacgatgta tgctcagaag ttggagcaga aggggagggg 541 tgattttagt attgctgagg tggcgctgct gcattgcttt gagactcaga ggaatgacat 601 gttaagggat gagaaagacg tgcgtctcaa agccgaggag gagatcgctg atctgcagcg 661 taagattgtc aagcgaagag agaagctcga ggaggacttg atcgcaacca agtccaatta 721 tgagcctgtt agccggtatg tggggttgag tgactacgag ttgaactgca agtgttggtc 781 tctttaccag cagttcaacc ctgataaggt gacagcagga gcgaagccta ctaggaagca 841 agtcaaggag gccttcgaca tgtacgcgga attcgtcgcc aagacgaata ggttagagtt 901 tttgaagcac gggaatgtga aggatgagct ccaggccttc attaatgcca agatattggg 961 ttatgagcaa ttaggagata aggggaagag tcgttatctt aggcgtcagc tggcagcaat 1021 gggtgttgag atggatcatg aagtggaatc agaggacgag gaagaggctg ctgaagaacc 1081 tgccggtggg gaagctgagg agggggaagg agatgacccc ttgcaggcca ctgtcggaga 1141 taatcccgat ggagaggcta gaggagaaga ggacactgca gtacaagttg cctccccagc 1201 tgtcacgcgc aacagaggta gaggcagagg ccgtgtcact cctctatccc aacgcaagga 1261 tagaggttga ggtccgccct attgggcggg acactagggc tattccattc tcgcggtcac 1321 ggtgggaggt gggagtccgt aaggttatcg gaggggggga agtcttgaat tgggatattg 1381 atggtaacaa gtacaggggt ggtggttgtt tcgctgatgc aatcaaactc cttgctggtg 1441 ctactcaacg tcccccccaa agattactgg aagactgtta cacaatcact acagcgcggg 1501 aggccctagg gttaccttca gatctggcgg tcccgagtgg aaagggaagt tgccatgtta 1561 ggaattacaa tgatgatgct acaagtgggc cgtttctttg gtctttcgga ataaagaaga 1621 agtatgggtt agataagctt ttgcagagtc tgatggagga tatctactgt cattattcta 1681 tatctgaagc tactgatagg gcgttgccat attttgctgc aagggtgggg ttccggtcta 1741 agctcctcac tatgggtgag gcggttaaga agtttacaga gtgtgctcct atgggtcgtt 1801 gtgtaatgat gttggatgct ctcgaacaat ttgcgtctgc gccgctatat aacgttctct 1861 ctaaatatac tgcggagaga tcaagagggc agacttcctt taggaacact gttgttcgag 1921 cgtcgtctga ctggatgcat ttttgggatg aggtgaaaga ggcagctgtc tgtgtagaat 1981 tggattggag taaattcgat agggaacgtc cttccgaaga cttggatttc atgattaagg 2041 tgatctgttc ttgtttcaga ccaaaagatg aggtggaggc taaactgttg aggggctatg 2101 gtgtctgtat gagaagggct ctggtggaaa ggagattgat aactgatgat ggcggggtta 2161 tccatattga cgggatggta ccaagtgggt cactctggac tggatggttg gacacggctt 2221 taaacatctt gtatattaag tccgttcttc ggtctattga tatattggag gaggaggcgg 2281 tcccgaagtg cgccggggat gacaacctaa cggtcttcag taaggatcct ggagatgaag 2341 tgctcgaaga aatgagggtt aagctgaatg attattttag ggctgggatt aagaaagagg 2401 acttcatcat tacccggcct cccttccatg tgaggacttt ccaggcggtc ttcaaggaag 2461 gaaccgacct atcgaagggg acatcgaaga taatgaagaa ggcttattgg cgtgagtttg 2521 aagatgaatt gaggatcgac caggagaagg gcttgtcaca taggtgggag tacaggttta 2581 aaggggctcc caaatttctt tcctgttatt ggttagagga tggaaggccc ataaggccat 2641 ctcacgagaa cttggagaag ctgctctatc cagaaggggt tcatgcaaat attgacgatt 2701 atatcgcagc agttttatcc atggttgtag acaatccatt caatcaccac aatattaacc 2761 atctcaagca cagatacatc atagccaatc aggttaagag gctgtcagca gcaggcggga 2821 gatgcgagga catcctccga ttggcgagga ttagggaacg tgaagatgaa gaggtacctg 2881 tcccacaaat tgctgtatgg cgcagggtga aggaatatgt cgatttggac agctacgagc 2941 cagccaagta ctacatccag gatttcaacg catttgtctc aggcgtcacc tccctatatg 3001 ccaggtcttc cacaggcggt cttgatgcat acaaggtcat ggatctgatc aggggtaatg 3061 ctacaatcgg aagaggacag tggggtaatg acgtcatgga ttggatcaga ttcgttcggg 3121 accatccagc aactaagtac ctcaaaggag cgaaacgatt cagggaacag cataatcaag 3181 aacctacgac agccaaacca tcgaaggatg cgagacgagc catcaagtta ctgcgtaata 3241 gtctcatcaa tgaggcctac gccgactcca acagctttgc catttccata tccgaacgtc 3301 tgagacggaa gaagccaact agataggatt taattttatg ttttgttatt tatatctgac 3361 tctcattgta aatctacttt attaaagatg tcgcactcgg cagttcttaa t //