Typing tool
|
Complete norovirus genomes
MT218311 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5103 ORF2: 5084..6706 ORF3: 6706..7512LOCUS MT218311 7512 bp RNA linear VRL 29-JUN-2021 DEFINITION Norovirus GII isolate 014_GII.Pe_GII.4_Araguaina nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MT218311 VERSION MT218311.1 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 Luchs,A. TITLE Direct Submission JOURNAL Submitted (18-MAR-2020) Virology, Adolfo Lutz Institute, Av Dr Arnaldo 355, Centro de Virologia, Cerqueira Cesar, Sao Paulo, Sao Paulo 01246902, Brazil COMMENT ##Assembly-Data-START## Assembly Method :: Genious v. 9 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7512 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="014_GII.Pe_GII.4_Araguaina" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Brazil" /collection_date="20-Jan-2014" /note="genotype: GII.Pe_GII.4" gene <1..5103 /gene="ORF1" CDS 1..5103 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QIM59623.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS LAKVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LVVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMKVGKQLKDVKTM SDLKQALKNIAIKKCQIVYNGSTYTLEADGRGSVKVDKVQSATVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTSKDGC LKPKDDEEFVVSSDDIKTEGKKGKNKSHRTPHHWAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYSSMELAITRATEEDFCEEEEAKIRQRIFKPTRKQRKEERASLGL VTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVS PSLFITSTHVIPHGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPE GTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPG DCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPIL GPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTE PRGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDC WNGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYAKIKKRLLWGSD LATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRW DSTQQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPC TSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKL KEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRG PNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSQLSKLVIAELKEGGMDFYVPRQ 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="QIM59624.1" /translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGKHDLV IPPNGYFRFDSRVNQFYTLAPMGNGTGRRRAL" gene 6706..7512 /gene="ORF3" CDS 6706..7512 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QIM59625.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 ttgaagatgg cgtctaacga cgcttccgct gccgctgtcg ccaacagcaa caacgacatc 61 gcaaaatctt caagtgacgg tgtgttttct aacatggctg tcacttttaa gcgggccctc 121 ggggcgcggc ctaaacagcc gcccccgaag gagataccac ccagaccccc gcgaccaccc 181 acaccagaat tggtcaaaaa gatccctcct cccccaccca acggggagga tgaactagtg 241 gtctcttaca gcgccaaaga tggcgtttcc ggactgcctg agctcaccac tgtcagacaa 301 ccggaagaaa ccaacacggc gttcagtgtc cccccactca accaaaggga gagcagggac 361 gccaaggagc cactaactgg aacaattatt gaaatgtggg atggagaaat ctaccattac 421 ggcctgtacg tggaacgagg tcttatactt ggtgtgcaca agccaccggc agccatcagc 481 cttgccaagg tcgagctaac accgctctct ttgttctgga gacctgtata cactccccag 541 tatctcatct ctccagacac tcttaggaga ttacatggag agtcattccc ctacactgca 601 tttgacaaca attgctacgc cttttgttgt tgggtattag acctaaacga ctcatggctg 661 agcaggagaa tgattcagag aacaacaggt ttcttcaggc cgtaccagga ttggaacagg 721 aaacccctcc ccactatgga tgattccaaa ttaaagaagg tagccaacat attcttgtgc 781 actttgtctt cactattcac cagacccatt aaggacataa tagggaagtt gaaacctctt 841 aacatcctta acattctggc tacatgtgat tggaccttcg caggcatagt ggaatcttta 901 atactcttag cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc 961 gcccccttgc taggtgatta tgaactgcaa ggacctgagg accttgtagt ggagctggtc 1021 ccaatagtga tgggggggat aggtttggtg ctaggattta ccaaagagaa aattggaaag 1081 atgctatcat ccgctgcatc cactttaaga gcttgtaaag accttggtgc atacggattg 1141 gaaatcttaa aattggtcat gaagtggttc ttcccaaaga aagaggaggc aaatgaactg 1201 gctatggtga gatccatcga ggacgcagtg ctagacctcg aggcaattga aaacaaccac 1261 atgaccaccc tactcaaaga caaagacagc ttggcaacct acatgagaac ccttgacctt 1321 gaggaggaga aagctagaaa actctcaacc aaatccgctt cacccgatat tgtgggcaca 1381 atcaactctc ttttggcaag aatcgctgct gcgcgctccc tagtgcatcg ggcgaaagaa 1441 gagctctcca gcaggccgag acctgtcgtt gtgatgatat cgggaagacc agggataggg 1501 aaaactcatc ttgccaggga gctggccaag aagatcgcgg cctccctcac aggggaccag 1561 cgtgtgggtc ttatcccacg caatggtgtc gaccactggg acgcatacaa gggcgaaaga 1621 gttgtcctat gggacgacta tggaatgagc aaccccatcc atgatgccct caggttgcag 1681 gagcttgctg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa 1741 gtctttgaca gtgatgccat aattatcacc accaatctgg ccaacccagc accactggat 1801 tatgtcaact ttgaagcgtg ctcgagacgt attgacttcc tcgtgtacgc agaggcccct 1861 gaggtggaga aggcgaagcg cgatttccca ggtcaacctg acatgtggaa gaacgctttc 1921 agtcctgact tctcacacat aaaactgtcg ctggctccac agggtggttt tgacaagaac 1981 ggcaacaccc cgcatggaaa aggggtcatg aagaccctca ccactggctc cctcatcgcc 2041 cgagcatcag ggttactcca tgagaggcta gatgaatatg aactgcaagg cccagccctc 2101 accactttca actttgaccg caacaagata cttgctttta gacagcttgc tgctgaaaac 2161 aagtatgggc tgatggacac aatgaaagtt ggaaaacagc tcaaggatgt caagaccatg 2221 tcagacctca aacaagcact caagaacatc gcgatcaaga agtgccagat agtgtacaat 2281 ggtagcacct acacacttga ggccgatggc aggggtagtg tgaaagttga caaagtgcag 2341 agtgccactg tgcagaccaa caatgaacta gccggtgccc tacaccacct aaggtgcgct 2401 agaatcagat actatgttaa gtgcgtccag gaggcgctgt attccatcat ccaaatcgct 2461 ggggctgcat tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtcc 2521 aagccacagg tggaagacac agaagagatg accagcaaag atggttgcct aaaacccaaa 2581 gatgatgaag aatttgtcgt ctcatccgac gacatcaaaa ctgagggcaa gaaagggaag 2641 aacaagtctc atcgtactcc tcatcactgg gccttttcaa gcaaagggct cagtgatgag 2701 gagtacgatg agtacaagag aatcagagaa gaaaggaatg gtaagtactc catagaagag 2761 taccttcagg acagagacag gtactcttct atggagttgg ccattaccag ggcaaccgaa 2821 gaggacttct gtgaagaaga agaggccaaa atccggcaga gaatttttaa accaacaagg 2881 aaacaacgca aagaagagag ggcctctctc ggcttggtca caggctctga aatcaggaag 2941 agaaatccag aagacttcaa acccaaggga aagctgtggg ctgatgatga cagaagtgtt 3001 gactacaatg agaaactcaa ctttgaggcc ccaccaagca tctggtcgcg gatagttaac 3061 tttggttcag gctggggctt ctgggtctcc cccagtctgt ttataacatc aacccatgtc 3121 ataccccacg gtgcaaaaga gttcttcgga gtccctatca agcaaatcca gatacacaaa 3181 tcaggtgaat tctgccggtt gagattccca aagccaatca gaactgatgt gacgggcatg 3241 attctagaag aaggtgcgcc cgagggaacc gtggccacac tgctcatcaa gaggccaact 3301 ggagagctca tgcctctggc agccagaatg ggaacccatg caaccatgaa aattcagggg 3361 cgcacagttg gagggcaaat gggcatgctc ctgacaggat ccaacgccaa gagtatggac 3421 ctaggcacaa caccaggcga ctgcggttgc ccctacatct acaagagggg gaatgactac 3481 gtggtcatag gagtccatac ggccgctgcc cgtggaggaa acactgtcat atgtgccact 3541 caggggagtg agggagaagc cacacttgaa ggaggtgaca gtaaagggac atactgtggc 3601 gcaccgatct tgggcccagg gagcgctccg aagctcagta ccaagactaa gttttggaga 3661 tcatccacaa caccactccc acctggcacc tacgaaccag cctacctcgg tggcaaagac 3721 cccagagtca aaggtggccc ttcactgcaa caagttatga gggaccagct aaagccattc 3781 acagaaccca gaggcaaacc accaaggcca aatgtgttgg aagctgccaa gaaaaccatc 3841 atcaatgtcc ttgagcaaac aattgatcca ccccaaaaat ggtcatttgc gcaagcttgc 3901 gcatcccttg acaaaaccac ctccagcggc cacccgcacc acatgcggaa aaacgattgt 3961 tggaatgggg agtccttcac gggaaaattg gctgatcaag cctccaaggc caacctaatg 4021 tttgaagagg gaaagaacat gactccagtc tacacaggtg cacttaaaga tgagttggta 4081 aagaccgata aagtttatgc taagatcaag aagaggctcc tgtggggttc agatctggcg 4141 accatgatac ggtgcgcccg agcttttgga ggccttatgg atgaactcaa ggcgcactgt 4201 gtcacacttc ctgtcagagt tggcatgaac atgaatgagg atggccccat catctttgag 4261 aagcactcca gatatagata tcactatgat gctgactatt cccggtggga ctcaacacaa 4321 caaagggatg tgctagcagc agcactagaa atcatggtta agttctctcc agaaccacac 4381 ctggcccagg tagttgcaga agacctcctt tcccctagcg taatggatgt aggtgacttt 4441 caaatatcaa taagtgaggg tcttccctct ggggtacctt gtacctccca gtggaattcc 4501 atcgcccact ggctcctcac tctttgtgca ctttctgaag tcacggacct gtcccctgac 4561 atcattcagg ccaactccct tttctccttc tatggtgatg atgagattgt aagcacagac 4621 ataaagttgg acccagagaa gctgacagca aaactcaagg agtacgggct gaaaccaacc 4681 cgccccgaca aaactgaagg accccttgtt atctctgaag acctggatgg cctgacattc 4741 ctccggagga ctgtgacccg tgatccagct ggttggtttg gaaaactgga acagagttca 4801 attctcagac aaatgtactg gaccaggggt cccaatcatg aagatccatt tgaaacaatg 4861 ataccacact cccaaagacc catacaattg atgtccttgc tgggcgaggc tgcactccac 4921 ggcccggcat tttatagcca actcagcaaa ttagtcattg cagagttgaa ggaaggtggc 4981 atggattttt acgtgcccag acaagagcca atgttcagat ggatgagatt ctcagatctg 5041 agcacgtggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag 5101 tgacgtcaac ccatctgatg ggtccgcagc caacctcgtc ccagaggtca acaatgaggt 5161 tatggctctg gagcccgttg ttggtgccgc cattgcggca cctgtagcgg gccaacaaaa 5221 tgtaattgac ccctggatta gaaacaattt tgtacaagcc cctggtggag agttcacagt 5281 atcccctaga aacgctccag gtgaaatact atggagcgcg cccttgggcc ctgacctaaa 5341 tccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca 5401 ggtaattctc gcggggaacg cgttcaccgc cgggaagatc atatttgcag cagtcccacc 5461 aaattttcca actgaaggct tgagccccag ccaggtcact atgttccccc atatagtagt 5521 agatgttagg caactagaac ctgtgttgat tcccttaccc gatgttagga ataatttcta 5581 tcattataat caatcaaatg atcccactat taagttgata gcaatgttgt atacaccact 5641 tagggctaat aacgctgggg atgatgtctt cacagtttct tgccgagttc tcacgagacc 5701 atcccccgat tttgatttca tatttctagt gccacccaca gttgagtcaa gaactaaacc 5761 attctctgtc ccagttttaa ctgttgagga gatgaccaat tcaagattcc ccattccttt 5821 ggaaaagttg ttcacgggtc ccagcagtgc ctttgttgtc caaccacaaa acggcaggtg 5881 cacgactgat ggcgtgctcc taggcaccac ccaactgtct cctgtcaaca tctgtacctt 5941 cagaggagat gtcacccata tcacaggtag tcgtaactac acaatgaatt tggcgtctca 6001 aaattggaac aattatgacc caacagaaga aatcccagcc cctctaggaa ctccagactt 6061 tgtggggaag attcaaggtg tactcaccca aaccacaagg acagatggct caacacgcgg 6121 tcacaaagcc acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagtaca 6181 atttgaaact gacacagacc atgattttga agctaaccaa aacacaaagt tcaccccagt 6241 cggtgtcatc caagatggtg gcaccaccca ccgaaatgaa ccccaacagt gggtgctccc 6301 aagttactca ggcagaaata ctcataatgt gcatctggcc cccgctgtag cccccacttt 6361 tccgggtgag caacttctct tctttagatc caccatgccc ggatgcagcg ggtaccccaa 6421 catggatttg gactgtctgc tcccccagga atgggtgcag tacttctacc aagaggcagc 6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt 6541 gtttgagtgt aagcttcata aatcaggcta tgttacagtg gctcacactg gcaaacatga 6601 tttggttatt ccccccaatg gttattttag gtttgattcc cgggtcaacc agttttacac 6661 gcttgccccc atgggaaatg ggacggggcg tagacgtgca ctataatggc tggagctttc 6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg 6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc 6841 ttccaattta gcagcaatct acaacaggct tcctttcagc atgacaaaga gatgctccaa 6901 gcacaaattg aggccaccaa aaagctacaa caggaaatga tgaaagttaa gcaggcaatg 6961 ctcctagagg gtgggttctc tgagacagac gcagcccgcg gggcaatcaa cgcccccatg 7021 acaaaagctt tggactggag cgggacaagg tactgggctc ccgatgctag gactacaaca 7081 tacaatgcag gccgcttctc cacccctcaa ccatcggggg cactgccagg aagagctaat 7141 cttagggatg ctgtccctgc tcggggttcc tctagtaaat cttctaactc ttctattgct 7201 acttctgtgt actcaaatca aactacttca acgagacttg gttctacagc tggttctggt 7261 accagtgtct cgagcctccc gtcaactgca aggactagga gctgggttga ggatcagagt 7321 aggaatttgt cacctttcat gaggggggcc cacaacatat cgtttgtcac cccaccatct 7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagaggtttt ggactcctgg 7441 actggcgctt tcaacacgcg caggcagcca ctcttcgctc acattcgtaa gcgaggggag 7501 tcacgggtgt aa //