LOCUS MN882032 6375 bp RNA linear VRL 29-MAY-2020 DEFINITION Tomato brown rugose fruit virus isolate 39070030_A, complete genome. ACCESSION MN882032 VERSION MN882032.1 KEYWORDS . SOURCE Tomato brown rugose fruit virus ORGANISM Tomato brown rugose fruit virus Viruses; Riboviria; Orthornavirae; Kitrinoviricota; Alsuviricetes; Martellivirales; Virgaviridae; Tobamovirus; Tobamovirus fructirugosum. REFERENCE 1 (bases 1 to 6375) AUTHORS van de Vossenberg,B.T.L.H., Visser,M., Westenberg,M. and Botermans,M. TITLE Real-time tracking of Tomato brown rugose fruit virus (ToBRFV) outbreaks in the Netherlands using nextstrain JOURNAL Unpublished REFERENCE 2 (bases 1 to 6375) AUTHORS van de Vossenberg,B.T.L.H., Visser,M., Westenberg,M. and Botermans,M. TITLE Direct Submission JOURNAL Submitted (27-DEC-2019) National Reference Centre, Dutch National Plant Protection Organization (NPPO-NL), Geertjesweg 15, Wageningen, Gelderland 6706EA, the Netherlands COMMENT ##Assembly-Data-START## Assembly Method :: CLC genomics workbench v. 11.0.1 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..6375 /organism="Tomato brown rugose fruit virus" /mol_type="genomic RNA" /isolate="39070030_A" /isolation_source="fruits" /host="Solanum lycopersicum" /db_xref="taxon:1761477" /geo_loc_name="Egypt" /collection_date="04-Nov-2019" CDS 60..4907 /codon_start=1 /transl_except=(pos:3408..3410,aa:OTHER) /product="RNA-dependent RNA polymerase" /protein_id="QHW03718.1" /translation="MAYTQTATTSALLDTVRGNNTLVNDLAKRRLYDTAVDEFNARDR RPKVNFSKVISEEQTLIATRAYPEFQITFYNTQNAVHSLAGGLRSLELEYLMMQIPYG SLTYDIGGNFASHLFKGRAYVHCCMPNLDVRDIMRHEGQKDSIELYLSRLERGNKVVP NFQKEAFDRYAETPDEVVCHSTFQTCTHQQVENTGRVYAIALHSIYDIPADEFGAALL RKNVHVCYAAFHFSENLLLEDSHVNLDEINACFSRDGDKLTFSFASESTLNYCHSYSN ILKYVCKTYFPASNREVYMKEFLVTRVNTWFCKFSRIDTFLLYKGVAHKGVNSEQFYS AMEDAWHYKKTLAMCNSERILLEDSSSVNYWFPKMRDMVIVPLFDISLDTSKRTRKEV LVSKDFVFTVLNHIRTYQAKALTYSNVLSFVESIRSRVIINGVTARSEWDVDKSLLQS LSMTFFLHTKLAVLKDELLISKFSLGPKSVSQHVWDEISLAFGNAFPSIKERLLNRKL IKVSGDALEIRVPDLYVTFHDRLVTEYKTSVDMPVLDIRKRMEETEVMYNALSELSVL KESDKFDVDVFSRMCQTLEVDPMTAAKVIVAVMSNESGLTLTFEQPTEANVALALKDS EKASEGALVVTSRDVEEPSMKGSMARGELQLAGLSGDQPESSYTRNEEIVSLEQFHMA TASSLIRKQMSSIVYTGPIKVQQMKNFIDSLVASLSAAVSNLVKILKDTAAIDLETRQ KFGVLDVATKRWLIKPLAKNHAWGVIETHARKYHVALLEYDEHGVVTCDSWRRVAVSS ESMVYSDMAKLRTLRGLLRDGEPHVSSAKVVLVDGVPGCGKTKEILSKVNFEEDLILV PGKQAAEMIKRRANASGIIQATRDNVRTVDSFIMNYGKGTRCQFKRLFIDEGLMLHTG CVNFLVSMSLCEIAYVYGDTQQIPYINRVSGFPYPAHFAKIEVDEVETRRTTLRCPAD ITHYLNRRYEGHVMCTSSVKKSVSQEMVSGAAMINPVSKPLNGKVLTFTQSDKEALLS RGYTDVHTVHEVQGETYADVSLVRLTPTPVSIIAGDSPHVLVALSRHTQTLKYYTVVM DPLVSIIRDLEKLSSYLLDMYKVDAGTQXQLQVDSVFKGSNLFVAAPKTGDISDMQFY YDKCLPGNSTMLNNYDAVTMRLTDISLNVKDCILDFSKSVAAPKDPIKPLIPMVRTAA EMPRQTGLLENLVAMIKRNFNSPELSGIIDIENTASLVVDKFFDSYLLKEKRKPNKNV SLFCRESLNRWLEKQEQVTIGQLADFDFVDLPAVDQYRHMIKAQPKQKLDTSIQSEYP ALQTIVYHSKKINAIFGPLFSELTRQMLESIDSSKFLFFTRKTPAQIEDFFGDLDSHV PMDILELDISKYDKSQNEFHCAVEYEIWRRLGLENFLGEVWKQGHRKTTLKDYTAGIK TCLWYQRKSGDVTTFIGNTVIIAACLASMLPMEKIIKGAFCGDDSLLYFPKGCEFPDI QHTANLMWNFEAKLFRKQYGYFCGRYVIHHDRGCIVYYDPLKLISKLGAKHIKDWDHL EEFRRSLCDVANSLNNCAYYTQLDDAVSEVHKTAPPGSFVYKSLVKYLSDKVLFRSLF IDGSC" CDS 60..3410 /codon_start=1 /product="small replicase subunit" /protein_id="QHW03719.1" /translation="MAYTQTATTSALLDTVRGNNTLVNDLAKRRLYDTAVDEFNARDR RPKVNFSKVISEEQTLIATRAYPEFQITFYNTQNAVHSLAGGLRSLELEYLMMQIPYG SLTYDIGGNFASHLFKGRAYVHCCMPNLDVRDIMRHEGQKDSIELYLSRLERGNKVVP NFQKEAFDRYAETPDEVVCHSTFQTCTHQQVENTGRVYAIALHSIYDIPADEFGAALL RKNVHVCYAAFHFSENLLLEDSHVNLDEINACFSRDGDKLTFSFASESTLNYCHSYSN ILKYVCKTYFPASNREVYMKEFLVTRVNTWFCKFSRIDTFLLYKGVAHKGVNSEQFYS AMEDAWHYKKTLAMCNSERILLEDSSSVNYWFPKMRDMVIVPLFDISLDTSKRTRKEV LVSKDFVFTVLNHIRTYQAKALTYSNVLSFVESIRSRVIINGVTARSEWDVDKSLLQS LSMTFFLHTKLAVLKDELLISKFSLGPKSVSQHVWDEISLAFGNAFPSIKERLLNRKL IKVSGDALEIRVPDLYVTFHDRLVTEYKTSVDMPVLDIRKRMEETEVMYNALSELSVL KESDKFDVDVFSRMCQTLEVDPMTAAKVIVAVMSNESGLTLTFEQPTEANVALALKDS EKASEGALVVTSRDVEEPSMKGSMARGELQLAGLSGDQPESSYTRNEEIVSLEQFHMA TASSLIRKQMSSIVYTGPIKVQQMKNFIDSLVASLSAAVSNLVKILKDTAAIDLETRQ KFGVLDVATKRWLIKPLAKNHAWGVIETHARKYHVALLEYDEHGVVTCDSWRRVAVSS ESMVYSDMAKLRTLRGLLRDGEPHVSSAKVVLVDGVPGCGKTKEILSKVNFEEDLILV PGKQAAEMIKRRANASGIIQATRDNVRTVDSFIMNYGKGTRCQFKRLFIDEGLMLHTG CVNFLVSMSLCEIAYVYGDTQQIPYINRVSGFPYPAHFAKIEVDEVETRRTTLRCPAD ITHYLNRRYEGHVMCTSSVKKSVSQEMVSGAAMINPVSKPLNGKVLTFTQSDKEALLS RGYTDVHTVHEVQGETYADVSLVRLTPTPVSIIAGDSPHVLVALSRHTQTLKYYTVVM DPLVSIIRDLEKLSSYLLDMYKVDAGTQ" CDS 4894..5694 /codon_start=1 /product="movement protein" /protein_id="QHW03720.1" /translation="MALVKGKVNINEFIDLSKSEKFLPSMFTPVKSVMISKVDKILVH EDESLSEVNLLKGVKLIDGGYVHLAGLVVTGEWNLPDNCRGGVSVCLVDKRMERADEA TLASYYTAAAKKRFQFKVVPNYNITTKDAEKAVWQVLVNIRNVKIAAGYCPLSLEFVS VCIVYKNIIKLGLREKITSVTDGGPMELSEEVVDEFMEEVPMSVRLAKFRSKTGKKFS SKSENNSGNNRPKPNKNQRKEKGLKVRVEKDNLIDNELETYVADSDSY" CDS 5697..6176 /codon_start=1 /product="coat protein" /protein_id="QHW03721.1" /translation="MSYTIATPSQFVFLSSAWADPIELINLCTNSLGNQFQTQQARTT VQRQFSEVWKPVPQVTVRFPDSGFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQAN PTTAETLDATRRVDDATVAIRSAINNLVVELVKGTGLYNQSTFESASGLQWSSAPAS" BASE COUNT 1937 a 1184 c 1466 g 1788 t ORIGIN 1 catataccaa caacaacaaa caacaaacaa caacattaca attactattt acaactacaa 61 tggcatacac acagacagct accacatccg ctttgctcga cactgtccga ggtaacaata 121 ccttggtcaa cgatcttgcg aagcggcgtc tttatgacac agcggtcgac gagttcaacg 181 ctcgtgatcg caggcccaaa gtaaattttt ccaaagtaat aagtgaggaa cagacgctta 241 ttgctactag ggcatatcca gaattccaga taaccttcta taatacgcag aacgccgtgc 301 attcgcttgc cggtggacta cgatccttag aactggaata tctaatgatg cagatcccgt 361 acggatcact cacatatgat ataggtggga attttgcatc tcatctgttc aaaggacggg 421 catatgttca ctgctgtatg cccaatcttg atgtccgcga cataatgcgg cacgaaggcc 481 agaaagacag tatagaatta tacctttcca ggcttgagcg gggcaacaaa gttgtcccaa 541 atttccaaaa ggaagctttt gacagatacg ctgaaacgcc agacgaagtt gtctgtcaca 601 gtaccttcca aacgtgtacg caccagcagg tggaaaacac aggcagggtg tatgctattg 661 cattgcacag tatatacgat atacctgctg atgaattcgg agcggcactt ttaaggaaaa 721 atgtccatgt ttgttacgcc gccttccact tttccgagaa tttacttctc gaagattcac 781 acgtcaacct tgacgaaatc aacgcgtgtt tttcgcgcga tggagacaag ctgacttttt 841 ctttcgcatc tgagagcact ttaaattact gtcatagtta ttctaatatt ttaaaatacg 901 tgtgcaaaac ttacttcccg gcatctaata gagaggtcta catgaaggag tttttggtca 961 ccagggttaa cacctggttt tgtaagtttt ctaggataga tactttttta ttatacaagg 1021 gggtagccca caaaggtgta aatagtgagc aattttacag cgcaatggaa gatgcatggc 1081 actacaaaaa gactcttgca atgtgtaaca gcgagaggat tcttcttgaa gattcctcat 1141 cggtcaatta ctggttccca aaaatgagag atatggtcat agttcctcta ttcgacatat 1201 ctctcgacac cagtaaaagg acccgcaaag aagtcttagt gtcaaaggat tttgtattca 1261 cagttttaaa tcacattcgc acttatcaag ccaaggcact tacatactcc aatgttttat 1321 cctttgtcga atcaattcgt tcaagggtaa ttatcaacgg agtgactgcc aggtctgagt 1381 gggatgttga caaatctctt ttgcaatcct tgtccatgac atttttcttg catactaagc 1441 ttgccgtttt aaaagacgaa ttgttaatca gcaagtttag tttggggcca aaatcagtaa 1501 gccagcatgt atgggatgag atttccctgg cttttggaaa cgcatttcca tcgatcaagg 1561 agagactgct aaatcggaaa ctaattaaag tgtcgggaga cgcattagaa atcagggtgc 1621 ctgatttata tgtgactttt cacgatagat tagtgactga gtacaaaaca tcggtggata 1681 tgccagtgct tgatatcaga aagagaatgg aggagactga ggttatgtac aatgcattgt 1741 ctgagctatc tgtgctcaag gagtcggaca agttcgacgt tgatgttttt tcccggatgt 1801 gccagacttt ggaggtagac ccaatgactg cagcaaaggt tattgtggca gtgatgagca 1861 atgagagcgg actgactctt acattcgaac agccaactga agcaaatgtc gcattggcac 1921 ttaaagattc agaaaaagcc tctgagggtg cactagtggt tacttctaga gatgttgaag 1981 aaccatccat gaagggttca atggcaagag gagagttaca attggccggt ctgtctggag 2041 accaaccaga gtcttcctat actcggaacg aggaaatagt gtcattagag caattccaca 2101 tggcaacggc tagttcgtta attcggaaac agatgagttc gattgtgtac acgggcccca 2161 ttaaagttca gcaaatgaaa aactttattg atagcctggt agcatcactc tctgctgcgg 2221 tgtcgaacct agtcaagatc ctaaaggata cagctgctat agatctcgaa acccgtcaga 2281 agtttggagt cttagatgtt gcgaccaaaa gatggttaat taaaccttta gccaagaatc 2341 acgcatgggg cgttattgaa acacatgcta ggaagtacca cgttgcactt ttggagtatg 2401 atgagcatgg agtggtaact tgcgacagtt ggagaagggt ggccgtgagt tctgagtcaa 2461 tggtttattc tgatatggca aagctcagaa cactgagggg attattaaga gatggtgagc 2521 ctcatgtcag cagtgctaaa gtcgtcctag ttgacggtgt cccgggttgt ggaaagacaa 2581 aagagattct ctcgaaagta aattttgagg aagatctaat cttagtaccg ggtaagcagg 2641 ctgctgaaat gataaagagg cgtgctaatg cgtcaggaat aattcaagcc acaagagata 2701 atgttcgtac tgttgattca tttataatga attacggtaa aggaacacgc tgtcagttca 2761 aaaggttatt tatcgacgaa ggtctgatgt tgcacactgg ttgtgtgaat tttcttgttt 2821 ctatgtctct gtgcgaaatt gcatatgttt atggagacac acaacaaatt ccatacatca 2881 acagagtatc cggttttccg taccctgcac attttgcaaa aatagaggtt gatgaggtgg 2941 aaactcgcag aactacgctg cgttgtccag ccgacattac tcactatctt aacagaaggt 3001 acgaaggaca tgtcatgtgt acatcgtcgg ttaaaaagtc agtttctcag gaaatggtga 3061 gcggggccgc aatgatcaat cctgtatcta agccattgaa tgggaaagtt ttgactttca 3121 ctcagtctga taaagaggcg ctgctttctc gaggatatac ggacgtccat acagtacatg 3181 aggtacaagg tgagacatat gcagacgtgt cgttggtcag attgactccg acacctgtat 3241 ctatcatcgc aggagatagt ccgcacgttc tcgtagcttt gtcaaggcat acccaaacat 3301 tgaagtatta caccgtagtg atggatcctc ttgtaagtat aattagggat ttagaaaaac 3361 ttagttctta cttgttagat atgtataaag tagatgcagg gacccaatag caattacagg 3421 tagactccgt gtttaaaggt tctaatcttt ttgttgcagc accaaagact ggagatatct 3481 cagatatgca attttactat gataagtgtc tcccaggtaa tagcaccatg ttaaataact 3541 atgatgctgt taccatgagg ttgactgaca tttctcttaa tgtcaaagat tgcatattgg 3601 atttctctaa gtctgtggct gcaccgaagg atccgatcaa accactgatt ccaatggtac 3661 gaacggcggc agaaatgcca cgccagactg gactattgga aaatttggtg gcgatgatca 3721 aaagaaactt caattcaccg gagttatcag gaataatcga cattgagaat actgcatctt 3781 tagtagtaga taaatttttt gatagttact tgcttaaaga aaaaagaaaa ccaaataaaa 3841 atgtttcttt attttgtaga gagtctctca atagatggtt agagaagcag gagcaagtga 3901 ccattggtca gcttgcagat tttgattttg tggatcttcc tgccgttgat cagtacaggc 3961 atatgattaa agcgcaacct aagcagaagc tggatacatc aattcaaagc gaatatccgg 4021 ccttgcagac gattgtgtat cattcgaaaa agatcaacgc aatcttcggt cctttgttca 4081 gtgagctcac aaggcaaatg ctcgaaagca tagactcaag taagtttttg ttctttacaa 4141 ggaagacgcc agctcaaatt gaggatttct tcggagatct cgatagccat gtccctatgg 4201 atatcttgga gttggatatt tcgaagtatg acaaatctca gaacgagttc cactgtgcag 4261 tagagtatga aatatggaga agacttggat tagaaaattt tctgggagaa gtttggaaac 4321 aaggccacag gaaaactact cttaaagatt acacagctgg tattaaaacg tgtttatggt 4381 accagagaaa gagtggggac gttacaacat tcatcggtaa tacggtgatt attgctgctt 4441 gtttagcttc catgttgccc atggagaaaa taatcaaagg tgcattttgc ggagatgaca 4501 gtttactata cttcccaaaa ggttgtgagt ttcctgacat acagcataca gccaacctta 4561 tgtggaattt cgaggctaag ctattcagaa agcagtatgg ttatttctgt ggaaggtacg 4621 tgatacatca tgacagaggg tgtattgttt attatgaccc tttgaagttg atttctaaac 4681 ttggtgctaa acacatcaag gattgggatc acttagaaga gttcagaaga tccctttgtg 4741 atgttgcaaa ttcgttgaac aactgtgcgt attacacgca gttggacgac gctgtgagtg 4801 aggtccataa aaccgcaccc ccgggttcgt ttgtatataa aagtttagtt aaatatctgt 4861 ccgataaggt tctttttaga agtttgttta tagatggctc ttgttaaggg taaagtcaat 4921 attaatgagt tcatagactt gtcaaaatca gaaaaatttc ttccgtctat gttcacacct 4981 gttaagagtg tcatgatctc caaggttgat aagatattgg ttcatgaaga tgaatctttg 5041 tccgaagtca atttactcaa aggtgtaaaa ctcattgatg gtggctatgt acatcttgct 5101 ggtcttgtgg tgacaggtga atggaatttg ccagataatt gtcgtggtgg tgtcagtgtc 5161 tgtttggtcg ataagagaat ggagagagcg gacgaggcaa ctcttgcttc atactatacc 5221 gcagcggcta agaaaaggtt tcagttcaaa gtcgttccaa attacaacat cactaccaag 5281 gacgcagaaa aggcagtttg gcaagtacta gttaatatta gaaatgttaa aattgctgcg 5341 ggttactgtc cgctgtcatt agaatttgtg tcagtgtgta ttgtttataa aaatattata 5401 aaactcggtt tgagagagaa aattacgagc gtcacggatg gagggcccat ggaactatca 5461 gaagaagttg ttgatgagtt catggaagaa gtcccgatgt ctgtaaggct tgcaaaattt 5521 cgttcgaaga ccggaaaaaa gtttagtagt aaaagtgaga ataatagtgg taataatagg 5581 ccgaaaccaa acaaaaacca aaggaaggaa aagggtttaa aagttagggt tgagaaggat 5641 aatttaattg ataatgaatt ggagacttac gtcgccgatt cagattcgta ttaaatatgt 5701 cttacacaat cgcaactcca tcgcaatttg tgtttttgtc atcagcatgg gccgacccta 5761 tagaattaat aaatttatgt actaattcac taggtaatca gttccaaaca caacaagcta 5821 gaacaaccgt tcaacggcaa tttagcgaag tgtggaaacc tgtccctcaa gtcactgtta 5881 ggtttcctga cagtggtttt aaggtgtata ggtacaatgc ggtactagat cctctagtta 5941 ctgctttgtt aggagctttc gatactagaa ataggattat agaagtcgaa aatcaggcga 6001 acccgacaac cgccgaaacg ttagacgcta ctcgtagagt agatgacgca acggtggcta 6061 taaggagcgc tataaataat ttagtagtag aattggtcaa aggaacaggt ttgtacaatc 6121 agagcacatt tgaaagtgca tccggtttac aatggtcctc tgcacctgca tcttgagata 6181 atcgagatgc ttaaataaca gattgtgtct gcaaacacac gtggtacgta cgataacgta 6241 tagtgttttt ccctccactt aaatcgaagg gtagtgtctt ggagcgcgcg ggacaaatgt 6301 gtatggttca tacacatccg taggcacgta ataaagcgag ggattcgaat tcccccggaa 6361 cccccggtag gggcc //