Typing tool
|
Complete norovirus genomes
MG599789 | GI.2 | ||
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GI.P2 |
ORF1: 1..5309 ORF2: 5293..6933 ORF3: 6933..7542LOCUS MG599789 7542 bp ss-RNA linear VRL 06-FEB-2018 DEFINITION Norovirus GI isolate Env/G1.2/UK/2016 nonstructural polyprotein gene, partial cds; VP1 gene, complete cds; and VP2 gene, partial cds. ACCESSION MG599789 VERSION MG599789.1 KEYWORDS . SOURCE Norovirus GI ORGANISM Norovirus GI Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7542) AUTHORS Adriaenssens,E.M., Farkas,K., Jones,D., Allison,H.E. and McCarthy,A.J. TITLE Viromic analysis of wastewater input to a river catchment reveals a diverse assemblage of enteric viruses JOURNAL Unpublished REFERENCE 2 (bases 1 to 7542) AUTHORS Adriaenssens,E.M., Farkas,K., Jones,D., Allison,H.E. and McCarthy,A.J. TITLE Direct Submission JOURNAL Submitted (04-DEC-2017) Department of Functional and Comparative Genomics, University of Liverpool, Biosciences Building, Crown Street, Liverpool L69 7ZB, United Kindgom COMMENT ##Assembly-Data-START## Assembly Method :: SPAdes v. 3.9.0 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7542 /organism="Norovirus GI" /mol_type="genomic RNA" /isolate="Env/G1.2/UK/2016" /isolation_source="sewage" /db_xref="taxon:122928" /country="United Kingdom" /collection_date="10-Oct-2016" /note="genotype: G1" CDS <1..5309 /note="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="AUN86969.1" /translation="NTSATSRFLSRFKGLGGGASPPSPIKIKSTEMALGLIGRTTPES TGTAGPPPKQQRDRPPRTQEEVQYGMGWSDRPIDQNVKSWEELDTTVKEEILDNHKEW FDAGGLGPCTMPPTYERVRDDSPPGEQVKWSARDGVNIGVERLTTVSGPEWNLCPLPP IDLRNMEPASEPTIGDMIEFYEGHIYHYSIYIGQGKTVGVHSPQAAFSVARVTIQPIA AWWRVCYIPQPKHRLSYDQLKELENEPWPYAAITNNCFEFCCQVMNLEDTWLQRRLVT SGRFHHPTQSWSQQTPEFQQDSKLELVRDAILAAVNGLVSQPFKNFLGKLKPLNVLNI LSNCDWTFMGVVEMVILLLELFGVFWNPPDVSNFIASLLPDFHLQGPEDLARDLVPVI LGGIGLAIGFTRDKVTKIMKSAVDGLRAATQLGQYGLEIFSLLKKYFFGGDQTERTLK GIEAAVIDMEVLSSTSVTQLVRDKQAAKAYMNILDNEEEKARKLSAKNADPHVISSTN ALISRISMARSALAKAQAEMTSRMRPVVIMMCGPPGIGKTKAAEHLAKRLANEIRPGG KVGLVPREAVDHWDGYHGEEVMLWDDYGMTKIQDDCNKLQAIADSAPLTLNCDRIENK GMQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVYCSAPEVEQIRRVSPGDTSAL KDCFKPDFSHLKMELAPQGGFDNQGNTPFGRGTMKPTTINRLLIQAVALTMERQDEFQ LQGKMYDFDDDRVSAFTTMARDNGLGILSMAGLGKKLRGVTTMEGLKNALKGYKISAC TIKWQAKVYSLESDGNSVNIKEERNILTQQQQSVCAASVALTRLRAARAVAYASCIQS AITSILQIAGSALVVNRAVKRMFGTRTATLSLEGPPREHKCRVHMAKAAGKGPIGHDD VVEKYGLCETEEDEEVAHTEIPSATMEGKNKGKNKKGRGRKNNYNAFSRRGLNDEEYE EYKKIREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGETEMEIRHRVFYKSKSR KHHQEERRQLGLVTGSDIRKRKPIDWTPPKSAWADDEREVDYNEKISFEAPPTLWSRV TKFGSGWGFWVSSTVFITTTHVIPTSAKEFFGEPLTSIAIHRAGEFTLFRFSKKIRPD LTGMILEEGCPEGTVCSVLIKRDSGELLPLAVRMGAIASMRIQGRLVHGQSGMLLTGA NAKGMDLGTIPGDCGAPYVYKRANDWVVCGVHAAATKSGNTVVCAVQASEGETTLEGG DKGHYAGHEIIKHGCGPALSTKTKFWKSSPEPLPPGVYEPAYLGGRDPRVTGGPSLQQ VLRDQLKPFAEPRGRMPEPGLLEAAVETVTSSLEQVMDTPVPWSYSDACQSLDKTTSS GFPYHRRKNDDWNGTTFIRELGEQAAHANNMYEQAKSMKPMYTAALKDELVKPEKVYQ KVKKRLLWGADLGTVVRAARAFGPFCDAIKSHTIKLPIKVGMNSIEDGPLIYAEHSKY KYHFDADYTAWDSTQNRQIMTESFSIMCRLTASPELASVVAQDLLAPSEMDVGDYVIR VKEGLPSGFPCTSQVNSINHWLITLCALSEVTGLSPDVIQSMSYFSFYGDDEIVSTDI EFDPAKLTQVLREYGLKPTRPDKSEGPIIVRKSVDGLVFLRRTISRDAAGFQGRLDRA SIERQIYWTRGPNHSDPFETLVPHQQRKVQLISLLGEASLHGEKFYRKISSKVIQEIK TGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDGV" CDS 5293..6933 /note="ORF2: major capsid protein" /codon_start=1 /product="VP1" /protein_id="AUN86970.1" /translation="MMMASKDAPQSADGASGAGQLVPEVNTADPLPMEPVAGPTTAVA TAGQVNMIDPWIVNNFVQSPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLSQMYNG WVGNMRVRILLAGNAFSAGKIIVCCVPPGFTSSSLTIAQATLFPHVIADVRTLEPIEM PLEDVRNVLYHTNDNQPTMRLVCMLYTPLRTGGGSGSSDSFVVAGRVLTAPSSDFSFL FLVPPTIEQKTRAFTVPNIPLQTLSNSRFPSLIQGMILSPDASQVVQFQNGRCLIDGQ LLGTTPATSGQLFRVRGKINQGARTLNLTEVDGKPFMAFDSPAPVGFPDFGKCDWHMR ISKTPNNTSSGDPMRSVSVQTNVQGFVPHLGSIQFDEVFNHPTGDYIGTIEWISQPST PPGTDINLWEIPDYGSSLSQAANLAPPVFPPGFGEALVYFVSAFPGPNNRSAPNDVPC LLPQEYITHFVSEQAPTMGDAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNGVGAGPQ QLPLNGVFLFVSWVSRFYQLKPVGTASTARGRLGVRRI" CDS 6933..>7542 /note="ORF3; minor structural protein; minor capsid protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="AUN86971.1" /translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRYQQDLALQRN TFEHDKDMLSYQVQASNALLAKNLNTRYSMLIAGGLSSADASRAVAGAPVTQLIDWNG TRVAAPRSSATTLRSGGFMAVPIPVQPKSKALQSSGFSNPAYDTSTVSSRTSSWVQSQ NSLRSVSPFHRQALQTVWVTPPGSTSSSSVSSTPYGVFNTDRR" ORIGIN 1 acaacactag tgctacatct cggtttctat cgagatttaa gggcttagga ggtggcgcaa 61 gcccccctag ccctataaaa atcaaaagta cagagatggc tctggggtta attggcagaa 121 cgaccccaga atcaacgggg accgctggtc caccgcccaa acaacagaga gaccgacctc 181 ctagaactca ggaggaggtc cagtatggta tgggatggtc cgataggccc attgatcaga 241 acgtcaaatc atgggaagag cttgacacca cagttaagga agagatccta gacaaccaca 301 aagaatggtt tgacgccggt ggtttgggcc cttgcacaat gcctccaaca tatgaacggg 361 tcagggatga cagtccacct ggtgaacaag ttaaatggtc cgcacgtgat ggagtcaaca 421 ttggagtgga acgcctcaca acagtgagtg ggcctgagtg gaatctttgc cccttacccc 481 ccattgattt gaggaacatg gaaccagcta gtgaacccac tattggagat atgatagaat 541 tctacgaagg ccacatctat cattactcca tatacattgg gcaaggcaaa acagtcggcg 601 tccattctcc acaggcggca ttttcagtgg ctagagtgac catccaaccc atagccgctt 661 ggtggagagt ttgttacata ccccaaccca agcatagact gagttacgac caactcaagg 721 aactagagaa tgagccatgg ccatacgcgg ccataaccaa taattgtttt gaattctgtt 781 gtcaagtcat gaaccttgag gacacgtggt tgcaaaggcg actggtcacg tcgggcagat 841 tccaccaccc cacccagtcg tggtcacagc agacccctga gttccagcaa gatagcaagt 901 tagagttggt tagggacgcc atattggctg cagttaatgg tcttgtttcg cagcccttta 961 agaatttctt gggtaaactt aaacccctca atgtgcttaa catcctgtct aactgtgatt 1021 ggaccttcat gggggtggtg gaaatggtca tactattact tgaactcttt ggtgtgttct 1081 ggaacccgcc tgatgtatcc aattttatag cgtcccttct tcctgatttc catcttcagg 1141 gacctgaaga cttggcacga gatctagtcc cggtgattct tggtggtata ggattagcta 1201 ttgggttcac cagagacaaa gttacaaaga tcatgaagag tgctgtggat ggtcttcgag 1261 ctgccacaca actgggacag tatggattag aaatattctc actgctcaag aagtacttct 1321 ttggggggga ccagactgag cgcaccctga aaggcattga ggcagcagtc atagatatgg 1381 aggtactgtc ctccacttca gtgacacagc tagtgaggga caaacaggca gcaaaggcct 1441 atatgaacat cttggacaat gaagaagaga aggccaggaa gctctctgct aaaaacgctg 1501 acccacatgt gatatcctca acaaatgccc taatatcgcg catatccatg gcacgatctg 1561 cattggccaa ggcccaggct gagatgacca gtcgaatgcg accagttgtc attatgatgt 1621 gtggcccacc tgggattggg aagaccaagg ctgccgagca cctagctaag cgtctagcca 1681 atgagatcag accaggtggt aaggtggggt tggttccccg tgaagctgtc gaccactggg 1741 acgggtatca tggtgaggaa gtgatgctgt gggatgacta tggcatgaca aaaatacaag 1801 acgactgtaa taaactccag gccattgctg attcggcccc cctcacatta aattgtgata 1861 ggattgaaaa taaaggaatg cagttcgttt cagatgcaat agtcatcacc accaacgccc 1921 caggccccgc ccctgtggac tttgtcaacc ttggaccagt gtgtagacgg gtcgactttt 1981 tggtgtactg ctctgcccca gaggtggagc agatacggag agtcagccct ggcgacacat 2041 cagcactgaa agactgcttt aagccagatt tctcacattt aaaaatggag ctggctccac 2101 aaggtgggtt tgataatcaa gggaacacac cgtttggaag aggcaccatg aagccaacaa 2161 ccattaatag actcctcata caagccgtgg cccttaccat ggaaaggcag gatgagttcc 2221 agttgcaggg aaaaatgtat gattttgatg atgacagagt gtcagcgttc accaccatgg 2281 cacgtgacaa tggcctgggc atcttgagca tggcgggtct gggtaagaag ttacgcggtg 2341 tcacaacgat ggagggcttg aagaatgccc tgaagggata caaaattagt gcgtgcacaa 2401 taaaatggca ggctaaagtg tactcactag aatcagatgg caacagtgtc aacattaaag 2461 aggagaggaa catcttaact caacaacaac agtcagtgtg tgctgcctct gtcgcgctca 2521 ctcgcctccg ggctgcgcgt gcggtggcat acgcgtcatg catccaatcg gctataactt 2581 ctatactaca aattgctggc tcagccctag tggtcaacag agcagtgaag agaatgtttg 2641 gcacgcgcac tgccaccctg tcccttgagg gcccccccag agaacacaaa tgcagggtcc 2701 acatggccaa ggccgcagga aaggggccta ttggccatga tgatgtggta gaaaagtatg 2761 ggctttgtga aactgaggag gatgaagaag tggcccacac tgaaatccct tctgccacca 2821 tggagggcaa gaataaaggg aagaacaaga aaggacgtgg tcggaagaac aactacaacg 2881 ccttctcccg caggggactc aatgatgaag agtacgaaga gtacaagaag atacgcgagg 2941 agaaaggtgg caattatagc atacaggagt acctagagga taggcaaagg tatgaagaag 3001 aactagcaga ggttcaagca ggtggagatg gaggaatcgg ggaaactgaa atggaaatcc 3061 gccacagagt gttctacaaa tctaagagta gaaagcatca ccaggaagag cgacgccagc 3121 tagggctggt gacaggttcc gacattcgga agagaaaacc aatcgactgg accccaccca 3181 agtcagcatg ggcagatgat gagcgtgagg tggattacaa tgagaagatc agttttgagg 3241 cgccccccac tttatggagc agagtgacaa agtttgggtc tggatggggt ttctgggtca 3301 gctctacagt cttcataacc acaacgcacg tcataccaac cagtgcgaag gaattctttg 3361 gtgaacccct aaccagcata gccatccaca gggctggtga gttcacccta ttcaggttct 3421 caaagaaaat taggcctgac ctcacaggta tgatccttga ggagggttgc cccgaaggca 3481 cagtgtgttc agtactaata aaaagagact ctggtgaact actgccattg gctgtaagaa 3541 tgggcgcaat agcatcaatg cgcatacagg gccgccttgt ccatgggcag tccggcatgt 3601 tgctcaccgg ggctaatgct aagggcatgg accttgggac catcccagga gactgtgggg 3661 ctccttatgt ctataagaga gccaacgact gggtggtctg tggtgtacac gctgctgcca 3721 ccaaatcagg caacaccgtt gtgtgcgccg ttcaggccag tgaaggagaa accacgcttg 3781 aaggcggcga caaaggtcac tatgctggac atgaaataat taagcatggt tgtggaccag 3841 ccttgtcaac caaaaccaaa ttctggaaat catcccccga accactaccc cctggggtct 3901 atgaacccgc ctacctcggg ggccgggacc ctagggtaac tggcggtccc tcactccaac 3961 aggtgttgcg ggaccaatta aagccatttg ctgagccacg aggacgcatg ccagagccag 4021 gtctcttgga ggccgcagtt gagactgtga cttcatcatt agagcaggtt atggacactc 4081 ccgttccttg gagctacagt gatgcgtgcc agtcccttga taagaccact agttctggtt 4141 ttccctacca cagaaggaag aatgacgact ggaatggcac cacctttatc agggagttag 4201 gggagcaggc agcacacgct aataacatgt atgaacaggc taaaagtatg aaacccatgt 4261 acacggcagc gcttaaagat gaactagtca aaccagagaa ggtataccaa aaagtgaaga 4321 agcgcttgtt gtggggggca gacttgggca cggtggttcg ggccgcgcgg gcctttggtc 4381 cattctgtga tgctataaaa tcccacacaa tcaaattgcc cattaaagtt ggaatgaatt 4441 caattgagga tgggccactg atctatgcag aacattcaaa gtataagtac cattttgatg 4501 cagattacac agcctgggat tcaactcaaa atagacaaat catgacagag tcattctcaa 4561 tcatgtgtcg gctaactgca tcacctgaac tagcttcagt ggtggctcaa gatttgcttg 4621 caccctcaga gatggatgtt ggcgactatg tcataagagt gaaggaaggc ctcccatctg 4681 gttttccatg tacatcacag gtcaatagta taaaccattg gttaataact ctgtgtgccc 4741 tttctgaagt aactggtctg tcgccagatg tcatccagtc catgtcatac ttctctttct 4801 atggtgatga tgaaatagtg tcaactgaca tagaatttga tccagcaaaa ctgacacaag 4861 tcctcaggga gtatggactt aaacctaccc gccccgacaa aagcgagggc ccaataattg 4921 tgaggaagag tgtggatggt ttggtctttt tgcgtcgcac tatctcccgc gacgccgcag 4981 gattccaggg gcgactggac cgggcatcca ttgaaagaca aatctactgg actagaggac 5041 ccaaccattc agaccctttt gagaccctgg tgccacacca acagaggaag gtccaactaa 5101 tatcattatt gggtgaggcc tcactgcatg gtgaaaagtt ttacaggaag atttcaagta 5161 aagtcatcca ggaaattaaa acagggggcc ttgaaatgta tgtgccagga tggcaagcca 5221 tgttccgttg gatgcggttc catgaccttg gtttgtggac aggagatcgc aatctcctgc 5281 ccgaatttgt aaatgatgat ggcgtctaag gacgcccctc aaagcgctga tggcgcaagc 5341 ggcgcaggtc aactggtgcc ggaggttaat acagctgacc ccttacccat ggaacctgtg 5401 gctgggccaa caacagccgt agccactgct gggcaagtta atatgattga tccctggatt 5461 gttaataatt ttgtccagtc acctcaaggt gagttcacaa tctctcctaa caacaccccc 5521 ggtgatattt tgtttgattt acaactaggt ccacatctaa accctttctt gtcacatttg 5581 tctcaaatgt ataatggctg ggttgggaac atgagggtca gaatcctcct tgctgggaat 5641 gcattctcag ctgggaagat tatagtttgt tgtgtccccc ctggctttac atcttcttct 5701 ctcaccatag ctcaggctac attgtttccc catgtaatag ctgatgtgag aacccttgag 5761 ccaatagaaa tgcccctcga ggatgtacgc aacgtcctct atcacaccaa tgacaatcaa 5821 ccaacaatgc ggctggtgtg tatgctatac acgccgctcc gcactggtgg ggggtctggt 5881 agttctgatt cctttgtagt tgctggcagg gttctcacag cccctagtag cgacttcagt 5941 ttcttgttcc ttgtcccgcc taccatagaa cagaagactc gggctttcac tgtgcctaat 6001 atccccttgc aaaccttgtc caattctagg tttccttccc tcatccaggg gatgattctg 6061 tcccccgatg catcccaagt ggttcaattc caaaatgggc gttgccttat agatggtcaa 6121 ctcttaggca ctacacccgc tacatcagga cagctattca gagtaagagg aaagataaat 6181 cagggagccc gcacacttaa cctcacagag gtggatggta aaccattcat ggcatttgat 6241 tcccctgcac ctgtggggtt ccccgatttt ggaaaatgtg attggcacat gagaatcagc 6301 aaaaccccaa acaacacaag ttcaggtgac cccatgcgca gtgtcagcgt gcaaaccaat 6361 gtgcagggtt ttgtgccaca tctgggaagt atacaatttg atgaagtgtt caatcatccc 6421 acaggtgact acattggcac cattgaatgg atttcccagc catccacacc ccctggaaca 6481 gatatcaatc tgtgggagat ccccgattat ggatcatccc tttcccaagc agctaatctg 6541 gcccccccag tattcccccc tggatttggt gaggcccttg tatactttgt ttctgctttc 6601 ccgggcccta ataaccgctc agccccgaat gatgtaccct gtcttctccc tcaagagtac 6661 ataacccact ttgtcagtga acaagcccca acgatgggtg acgcagcttt actgcattat 6721 gtcgaccctg ataccaacag gaaccttggg gagttcaagc tataccctgg gggttacctc 6781 acctgtgtac caaacggggt aggtgccggg cctcaacagc tccccctcaa tggtgttttt 6841 ctctttgttt cttgggtgtc tcgtttttac cagcttaagc ctgtgggaac agccagtacg 6901 gcaagaggta ggcttggagt acgccgtata taatggccca agccatcata ggagcaatag 6961 ccgcgtcagc tgcaggctca gcattgggtg cgggcatcca ggctggtgcc gaggctgcgc 7021 ttcagagtca aagataccaa caagacttag ccctgcaaag gaatactttc gaacatgata 7081 aggatatgct ttcctaccag gtccaggcaa gtaatgcact tttagcaaag aatctcaata 7141 cccgctattc tatgcttatt gcagggggtc tttctagtgc tgatgcttct cgggctgttg 7201 ctggggcccc tgtaacacaa ttgattgatt ggaacggcac tcgggttgcc gcccccaggt 7261 caagtgcaac aactctgagg tctggtggtt tcatggcagt ccccatacct gttcaaccca 7321 aatctaaggc cttgcaatcc tctggatttt ctaatcctgc ttatgacacg tccacagttt 7381 cttctaggac ttcttcttgg gtgcagtcac agaattccct gcgaagtgtg tcaccctttc 7441 ataggcaggc ccttcaaact gtatgggtca ctccacctgg gtctacttcc tcttcttctg 7501 tttcctcaac accttatggt gtttttaata cggacagacg ga //