Typing tool
|
Complete norovirus genomes
MN308018 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5103 ORF2: 5084..6706 ORF3: 6706..7512LOCUS MN308018 7512 bp RNA linear VRL 29-JUN-2021 DEFINITION Norovirus GII isolate 160_GII.Pe_GII.4_Agua Azul do Norte nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MN308018 VERSION MN308018.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7512) AUTHORS Tinker,R.J., da Costa,A.C., Tahmasebi,R., Milagres,F.A.P., Dos Santos Morais,V., Pandey,R.P., Jose-Abrego,A., Brustulin,R., Rodrigues Teles,M.D.A., Cunha,M.S., Araujo,E.L.L., Gomez,M.M., Deng,X., Delwart,E., Sabino,E.C., Leal,E. and Luchs,A. TITLE Norovirus strains in patients with acute gastroenteritis in rural and low-income urban areas in northern Brazil JOURNAL Arch Virol 166 (3), 905-913 (2021) PUBMED 33462673 REFERENCE 2 (bases 1 to 7512) AUTHORS Tinker,R.J., da-Costa,A.C., Leal,E.S., Tahmasebi,R., Milagres,F.A.P., Pandey,R.P., Jose-Abrego,A., Brustulin,R., Teles,Md.A.R., Sayao-Lobato,M.C.A.B., Chagas,R.T., Santos-Abrao,Md.F.N., Alves-Soares,C.V.D., Cunha,M.S., Deng,X., Delwart,E., Sabino,E.C. and Luchs,A. TITLE Direct Submission JOURNAL Submitted (13-AUG-2019) Institute of Tropical Medicine, University of Sao Paulo, Av Dr Eneas de Carvalho Aguiar 470, Sao Paulo, Sao Paulo 05403000, Brazil COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. R9 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7512 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="160_GII.Pe_GII.4_Agua Azul do Norte" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Brazil" /collection_date="04-Mar-2015" /note="genotype: GII.Pe_GII.4" gene 1..5103 /gene="ORF1" CDS 1..5103 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QED42442.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP KQPPPKEVPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTM SDLKQALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGC LQPKDDEEFVVSSDDIKTEGRKGKNKSHRTPHHWAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLPVRDRYSSMEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGL VTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVS PSLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPE GTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPG DCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPIL GPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTE PRGKPPRPNVLEAAKKTVINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDC WNGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSD LATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRW DSTQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPC TSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKL KEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRG PNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQ EPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide 1..990 /gene="ORF1" /product="p48" mat_peptide 991..2088 /gene="ORF1" /product="NTPase" mat_peptide 2089..2625 /gene="ORF1" /product="p22" mat_peptide 2626..3027 /gene="ORF1" /product="VPg" mat_peptide 3028..3570 /gene="ORF1" /product="Pro" mat_peptide 3571..5100 /gene="ORF1" /product="RdRp" gene 5084..6706 /gene="ORF2" CDS 5084..6706 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QED42443.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSAGFSPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTPNVRLSNLGAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV" gene 6706..7512 /gene="ORF3" CDS 6706..7512 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QED42444.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAVLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 ttgaagatgg cgtctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc 61 gcaaaatctt caagtgacgg tgtgttttct aacatggctg tcacttttaa gcgggccctc 121 ggggcgcggc ctaaacagcc gcccccgaag gaagtaccac ccagaccccc gcgaccaccc 181 acaccagaat tggtcaaaaa gatccctcct cccccaccca acggggagga tgaactagtg 241 gtctcttaca gcgccaaaga tggcgtttcc ggattgcctg agctcaccac tgtcagacaa 301 ccggaagaaa ccaacacggc gttcagtgtc cccccactca accaaaggga gagcagggac 361 gccaaggagc cactaactgg aacaatcatt gaaatgtggg atggagaaat ctaccattac 421 ggcctgtacg tggaacgagg tcttatactt ggtgtgcaca agccaccggc agccattagc 481 cttgccaagg tcgagctagc accgctctct ttgttctgga gacctgtata caccccccag 541 tatctcatct ctccggacac tcttaggaga ttgcatggag agtcattccc ttacactgca 601 tttgacaaca attgctacgc cttttgttgt tgggtgttag acctaaacga ctcatggcta 661 agcaggagaa tgattcagag aacaacaggc ttctttaggc cgtaccagga ttggaacagg 721 aaacccctcc ccactatgga tgattccaag ttaaagaagg tagccaacat attcttgtgc 781 actttgtctt cactattcac cagacccatt aaggatataa tagggaagtt gaaacctctt 841 aacatcctta acattctggc tacatgtgat tggaccttcg caggcatagt ggaatcctta 901 atactcttgg cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc 961 gcccccttgc taggtgatta tgaactgcaa ggacctgagg accttgcagt ggaactggtc 1021 ccaatagtga tgggggggat aggtttggtg ctaggattta ccaaagagaa aatcggaaag 1081 atgctatcat ccgctgcatc cactttaaga gcttgcaaag accttggtgc atacggactg 1141 gaaatcttaa aattggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg 1201 gctatggtga gatccatcga ggatgcagta ctagaccttg aggcaattga aaacaaccac 1261 atgaccaccc tactcaaaga caaagacagc ttggcaacct acatgagaac ccttgacctt 1321 gaggaggaga aagccagaaa actctcaacc aaatctgctt cacccgatat tgtgggcaca 1381 atcaactctc ttctggcaag aatcgctgct gcacgctccc tagtgcatcg ggcgaaagaa 1441 gagctttcca gcaggccgag acctgtcgtt gtgatgatat cgggaagacc agggataggg 1501 aaaactcacc ttgccaggga gctggccaag aagattgcgg cctccctcac aggggaccag 1561 cgtgtgggtc ttatcccacg caatggtgtc gaccactggg acgcatacaa gggcgaaaga 1621 gttgtcctat gggacgacta tggaatgagc aaccccatcc atgatgccct caggttacag 1681 gagcttgctg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa 1741 gtctttgaca gtgatgccat aattattacc accaatctgg ccaacccagc accactggat 1801 tatgtcaact ttgaagcgtg ctcgagacgc attgatttcc tcgtgtacgc tgaagcccct 1861 gaggtggaga aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc 1921 agtcctgact tctcacacat aaaactgtca ttggctccac agggtggttt tgacaagaat 1981 ggcaacaccc cgcatggaaa aggggtcatg aagaccctca ccactggctc cctcatcgcc 2041 cgagcatcag ggttactcca tgagaggcta gatgaatatg aactgcaagg cccggccctc 2101 accactttca actttgaccg caacaagata cttgctttta gacagcttgc tgctgaaaac 2161 aagtatgggc tgatggacac aatgagagtt ggaaaacaac tcaaggatgt caagaccatg 2221 tcagacctca aacaagcact caagaacatc gcgatcaaaa agtgccagat agtgtacaat 2281 ggtggcacct acacacttga ggctgatggc aagggtagtg tgaaagttga caaagtgcaa 2341 agtgccactg tgcagaccaa caatgaactt gccggtgccc tacaccacct aaggtgcgct 2401 agaatcagat actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct 2461 ggggctgcat tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtct 2521 aagccacagg tggaagacac agaagagatg gctaacaaag atggttgcct acaacccaaa 2581 gatgatgaag agtttgtcgt ctcatccgac gacatcaaaa ctgagggcag aaagggaaag 2641 aacaagtctc atcgtactcc tcatcactgg gctttttcaa gtaaaggact cagtgatgag 2701 gagtacgatg agtacaagag gatcagagaa gaaaggaatg gtaagtactc catagaagag 2761 taccttccgg tcagagacag gtactcttct atggaggtgg ccattgccag ggcaaccgaa 2821 gaggacttct gtgaagaaga agaggccaaa atccggcaga gaattttcag gccaacaagg 2881 aaacaacgca aagaagagag ggcctctctc ggcttggtca caggctctga aatcaggaag 2941 agaaacccag aagacttcaa acccaaggga aagctgtggg ctgatgatga cagaagtgtt 3001 gactacaatg agaaactcaa ctttgaggcc ccaccaagca tctggtcgcg gatagtcaac 3061 tttggttcag gctggggctt ctgggtctcc cccagtctgt ttataacatc aacccatgtc 3121 ataccccaag gtgcaaaaga gttcttcgga gtccctatca agcaaatcca gatacacaag 3181 tcaggtgaat tctgccggtt gagattccca aagccaatca gaactgatgt gacgggcatg 3241 attctagaag aaggtgcgcc cgaggggacc gtggccacac tgctcatcaa gagaccaact 3301 ggagagctca tgcctctggc agccagaatg gggacccatg caaccatgaa aattcagggg 3361 cgcacagttg gaggacaaat gggtatgctc ctgacaggat ccaatgccaa gagcatggac 3421 ctaggcacaa caccaggcga ctgcggctgc ccctacatct acaagagggg gaatgactac 3481 gtggtcatag gagtccatac ggccgctgcc cgtggaggaa acactgtcat atgtgccacc 3541 caggggagtg agggagaagc cacacttgaa ggaggtgaca gtaaagggac atactgtggc 3601 gcaccaatct tgggcccagg gagcgctccg aagctcagta ccaagactaa gttttggaga 3661 tcatccacaa caccactccc acctggcacc tacgaaccag cctacctcgg tggcaaagac 3721 cctagagtca aaggtggtcc ttcattgcag caagttatga gggaccagct gaagccattc 3781 acagaaccca gaggcaaacc accaagacca aatgtattgg aagctgccaa gaaaaccgtc 3841 atcaatgtcc ttgagcaaac aattgatcca cctcaaaaat ggtcatttgc gcaagcttgc 3901 gcatcccttg acaaaactac ctccagcggc cacccccacc acatgcggaa aaacgactgt 3961 tggaatgggg agtccttcac aggaaagttg gctgatcaag cctccaaggc caatctaatg 4021 tttgaagagg gaaagaacat gactccagtt tacacaggtg cacttaaaga tgagttggta 4081 aagaccgata aagtttatgg taaggtcaag aagaggcttc tgtggggttc agatctggcg 4141 accatgatac ggtgcgcccg agcttttgga ggccttatgg atgaactcaa ggcacactgt 4201 gtcacacttc ctgtcagagt tggtatgaac atgaatgagg atggccccat catctttgag 4261 aagcactcca gatatagata tcactatgat gctgattatt cccggtggga ttcaacacaa 4321 caaagggatg tgctagcagc agcactagaa atcatggtta agttctctcc agaaccgcac 4381 ctggcccaga tagttgcaga agacctcctc tcccctagcg tgatggatgt aggtgacttt 4441 caaatatcaa taagtgaggg tctcccctct ggggtacctt gtacctccca gtggaattcc 4501 atcgcccact ggctcctcac tctgtgtgca ctctctgaag tcacggacct gtcccctgat 4561 atcattcagg ccaactccct tttctccttc tatggtgatg atgaaattgt aagcacagac 4621 ataaagttgg acccagagaa gctgacagca aaactcaagg agtacgggct gaaaccaacc 4681 cgccccgaca aaactgaagg accccttgtt atctctgaag acctggatgg cctgacattc 4741 ctccggagaa ctgtgacccg tgatccagct ggctggtttg gaaaattgga acaaagttca 4801 attctcaggc aaatgtactg gaccaggggt cccaaccatg aagatccatt tgaaacaatg 4861 ataccacact cccaaagacc catacaattg atgtccttgc tgggcgaggc tgcactccac 4921 ggcccggcat tctatagcaa aattagcaaa ttagtcattg cagagttgaa ggaaggtggc 4981 atggattttt acgtacccag acaagagcca atgttcagat ggatgagatt ctcagatctg 5041 agtacgtggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag 5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgtc ccagaggtca acaatgaggt 5161 tatggctctg gagcccgttg taggtgccgc cattgcggca cctgtagcgg gccaacaaaa 5221 tgtaattgac ccctggatta gaaataattt tgtacaagcc cctggtggag agtttacagt 5281 atcccctaga aacgctccag gtgaaatact atggagcgcg cccctgggcc ctgatctaaa 5341 tccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca 5401 ggtaattctc gcggggaacg cgttcaccgc cgggaaggtc atatttgcag cagtcccacc 5461 aaattttcca actgaaggct tgagccccag ccaggtcact atgttccccc atatagtagt 5521 agatgttagg caactagaac ctgtgttgat tcccttaccc gatgttagga ataatttcta 5581 tcattacaat caatcaaatg accccaccat taagttgata gcaatgttgt acacaccact 5641 tagggctaat aatgctgggg atgatgtctt cacagtttct tgccgagttc tcacgagacc 5701 atcccccgat tttgatttca tatttctagt gccacccaca gttgagtcaa gaactaaacc 5761 attctctgtc ccagttttaa ctgttgagga gatgaccaat tcaagattcc ccattccttt 5821 ggaaaagttg ttcacgggtc ccagcagtgc ctttgttgtc caaccacaaa acggtaggtg 5881 tacgactgat ggcgtgctcc taggcaccac ccaactgtcc cctgtcaaca tttgcacctt 5941 cagaggagat gtcacccata tcacaggtag tcgcaactac acaatgaatt tggcttctca 6001 gaattggagc aattatgacc caacagaaga aatcccagcc cctctaggaa ctccagattt 6061 tgtggggaag attcaaggca tgctcaccca aaccacaagg acagatggct cgacacgcgg 6121 ccacaaagcc acagtgtaca ctgggagcgc cggtttttct ccaaaactgg gtagagttca 6181 atttgaaact gacacagacc atgattttga agctaaccaa aacacaaagt tcaccccagt 6241 tggtgtcatc caagatggta gcaccactca ccgaaatgaa ccccaacagt gggtgctccc 6301 aagttactca ggcagaaaca ctcccaatgt gcgcctgagt aacttgggag cacccacttt 6361 tccgggtgag caacttctct tcttcaggtc caccatgccc ggatgcagcg ggtaccctaa 6421 catggatttg gactgtctac tcccccagga atgggtgcag tacttctacc aagaggcagc 6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt 6541 gtttgagtgt aagcttcata aatcaggcta tgttacagtg gctcacactg gccaacatga 6601 tttggttatc ccccccaatg gctattttag gtttgattcc tgggtcaacc agttttacac 6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgca gtataatggc tggagctttc 6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg 6781 gctggggcca tcaaccaaaa agtcgagttt gaaaataaca gaaaattgca acaagcatcc 6841 ttccaattta gcagcaatct acaacaggct tcctttcaac atgacaaaga gatgctccaa 6901 gcacaaattg aggccaccaa aaggctacaa caggaaatga tgaaagttaa gcaggcagtg 6961 ctcctagagg gtgggttctc tgagacagat gcagcccgcg gggcaatcaa cgcccccatg 7021 acaaaagctt tggactggag cgggacaagg tactgggctc ccgatgctag gactacaaca 7081 tacaatgcag gccgcttttc tacccctcaa ccatcagggg cactgccagg aagagctaat 7141 cttagggatg ctgtccctgc tcggggttcc tccagtaagt cttctaactc ttcaactgct 7201 acttctgtgt actcaaatca aaccacttca acgagacttg gttctacagc tggttctggc 7261 accagtgtct cgagcttccc gtcaactgca aggactagga gctgggttga ggatcaaagt 7321 aggaatttgt cacctttcat gaggggggct cacaacatat cgtttgtcac cccaccatct 7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagagatttt ggactcctgg 7441 actggcgctt tcaacacgcg caggcagcca ctcttcgctc acattcgtaa gcgaggggag 7501 tcacgggcgt aa //