Typing tool
|
Complete norovirus genomes
MN307996 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5103 ORF2: 5084..6706 ORF3: 6706..7512LOCUS MN307996 7512 bp RNA linear VRL 29-JUN-2021 DEFINITION Norovirus GII isolate 031_GII.Pe_GII.4_Fortaleza do Tabocao nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MN307996 VERSION MN307996.1 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="031_GII.Pe_GII.4_Fortaleza do Tabocao" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Brazil" /collection_date="03-Jun-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="QED42376.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGMFSNMAVTFKRALGARP KQPPPREVPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPIVMGGIGLVLGFTKERIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEGKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEYELQGPALTTLNCVHQPILAFRQLAAENKYGLMDTMRVGKQLKDVKTM SDLKQALKNIAIKKCQIVYDGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQMEDTEEMTNKDGC LKPKDDEEFVVSSDDIKTEGKKGKNKSHRTPHHWAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYSSMEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGL VTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVS PSLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPE GTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPG DCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGNEGEATLEGGDSKGTYCGAPIL GPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTE PRGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDC WNGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKVKKRLLWGSD 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="QED42377.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNVDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" gene 6706..7512 /gene="ORF3" CDS 6706..7512 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QED42378.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNKKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAVLLEGGFSETDAARGATN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSIARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 ttgaagatgg cgtctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc 61 gcaaaatctt caagtgacgg tatgttttct aacatggctg tcacttttaa gcgggccctc 121 ggggcgcggc ctaaacagcc gcccccgagg gaagtaccac 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 cattaactgg 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 tgggtattag acctaaacga ctcatggcta 661 agcaggagaa tgattcagag aacaacaggc ttctttaggc cgtaccagga ttggaacagg 721 aaacccctcc ccactatgga tgattccaag ttaaagaagg tagccaacat attcttgtgc 781 actttgtctt cactattcac cagacccatt aaggacataa tagggaagtt gaaacctctt 841 aacatcctta acattctcgc tacatgtgat tggaccttcg caggcatagt ggaatcctta 901 atactcttgg cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc 961 gcccccttgc taggtgatta tgaactgcaa ggacctgagg accttgcagt ggaactggtc 1021 ccaatagtga tgggggggat aggtttggtg ctaggattta ccaaagagag aatcggaaag 1081 atgctatcat ccgctgcatc cactttaaga gcttgtaaag accttggtgc atacggactg 1141 gaaatcttaa aattggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg 1201 gctatggtga gatccatcga ggatgcagta ctagaccttg aggcaattga aaacaaccac 1261 atgaccaccc tactcaaaga caaagacagc ttggcaacct acatgagaac ccttgacctt 1321 gaggagggga aagccagaaa actctcaacc aaatctgctt cacccgatat tgtgggcaca 1381 atcaactctc ttctggcaag aatcgctgct gcacgctccc tagtgcatcg ggcgaaagaa 1441 gagctctcca gcaggccgag acctgtcgtt gtgatgatat cgggaagacc agggataggg 1501 aaaactcacc ttgccaggga gctggccaag aagatcgcgg cctccctcac aggggaccag 1561 cgcgtgggtc ttatcccacg caatggtgtc gaccactggg acgcatacaa gggcgaaaga 1621 gttgtcctat gggacgacta tggaatgagc aaccccatcc atgatgccct caggttacag 1681 gaacttgctg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa 1741 gtctttgaca gtgatgccat aattatcacc 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 accactctca actgtgtcca tcagcccata cttgctttta gacagcttgc tgctgaaaac 2161 aagtatgggc tgatggacac aatgagagtt ggaaaacaac tcaaggatgt caagaccatg 2221 tcagacctca aacaagcact caagaacatc gcgatcaaaa agtgccagat agtgtacgat 2281 ggtggcacct acacacttga ggctgatggc aagggtagtg tgaaagttga caaagtgcaa 2341 agtgccactg tgcagaccaa caatgaactt gccggtgccc tacaccacct aaggtgcgct 2401 agaatcagat actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct 2461 ggggctgcgt tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtcc 2521 aagccacaga tggaagacac agaagagatg accaacaaag atggttgcct aaaacccaaa 2581 gatgatgaag agtttgtcgt ctcatccgac gacatcaaaa ctgagggcaa gaaagggaag 2641 aacaagtctc atcgtactcc tcatcactgg gccttttcaa gtaaaggact cagtgatgag 2701 gagtacgatg agtacaagag gatcagagaa gaaaggaacg gtaagtactc catagaagag 2761 taccttcagg acagagacag gtactcttct atggaggtgg ccattgccag agcaaccgaa 2821 gaggacttct gtgaagaaga agaggccaaa atccggcaga gaattttcag accaacaagg 2881 aaacaacgca aagaagagag ggcctctctc ggcttggtca caggctctga aatcaggaag 2941 agaaacccag aagacttcaa acccaaggga aagctgtggg ctgatgatga cagaagtgtt 3001 gactacaatg agaaactcaa ctttgaggcc ccaccaagca tctggtcgcg tatagtcaac 3061 tttggttcag gctggggctt ctgggtctcc cccagtctat 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 gagggcaaat gggtatgctc ctgacaggat ccaatgccaa gagtatggac 3421 ctgggcacaa caccaggcga ctgcggctgc ccctacatct acaagagggg gaatgactac 3481 gtggtcatag gagtccatac ggccgccgcc cgtggaggaa acactgtcat atgtgccacc 3541 caggggaatg agggagaagc cacacttgaa ggaggtgaca gtaaagggac atactgtggc 3601 gcaccaatct tgggcccagg gagcgctccg aagctcagta ccaagactaa gttttggaga 3661 tcatccacaa caccactccc acctggcacc tacgaaccag cctacctcgg tggcaaagac 3721 cctagagtca aaggtggccc ttcactgcag caagttatga gggaccagct gaagccattc 3781 acagaaccca gaggcaaacc accaagacca aatgtgttgg aagctgccaa gaaaaccatc 3841 atcaatgtcc ttgagcaaac aattgatcca cctcaaaaat ggtcatttgc gcaagcttgc 3901 gcatcccttg acaaaaccac ctccagcggc cacccccacc acatgcggaa aaacgactgt 3961 tggaatgggg agtccttcac gggaaaattg gctgatcaag cctccaaggc caacctaatg 4021 tttgaagagg gaaagaacat gactccagtt tacacaggtg cacttaaaga tgagttggta 4081 aagaccgata aaatttatgg taaggtcaag aagaggcttc tgtggggttc agatctggcg 4141 accatgatac ggtgcgcccg agcttttgga ggtcttatgg atgaactcaa ggcacactgt 4201 gtcacacttc ctgtcagagt tggtatgaac atgaatgagg atggccccat catctttgag 4261 aagcactcca ggtatagata ccactatgat gctgattatt cccggtggga ttcaacacaa 4321 caaagggatg tgctagcagc agcactagaa atcatggtta agttctctcc agaaccacac 4381 ctggcccaga tagttgcaga agacctcctc tcccctagcg tgatggatgt aggtgacttt 4441 caaatatcaa taagtgaggg tctcccctct ggggtacctt gtacctccca gtggaattcc 4501 atcgcccatt ggctcctcac tctgtgtgca ctctctgaag tcacggacct gtcccccgat 4561 atcattcagg ccaactccct tttctccttc tatggtgatg atgaaattgt aagcacagat 4621 ataaagttgg acccagagaa gctgacagca aaactcaagg agtacgggct gaaaccaacc 4681 cgccccgaca aaactgaagg accccttgtt atctctgaag acctggatgg cctgacattc 4741 ctccggagaa ctgtgacccg tgatccagct ggctggtttg gaaaattgga acagagttca 4801 attctcaggc aaatgtactg gaccaggggt cccaaccatg aagatccatt tgaaacaatg 4861 ataccacact cccaaagacc catacaattg atgtccttgt tgggcgaggc tgcactccac 4921 ggcccggcat tctatagcaa aattagcaaa ttagtcattg cagagttgaa ggaaggtggc 4981 atggattttt acgtacccag acaagagcca atgttcagat ggatgagatt ctcagatctg 5041 agcacgtggg 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 ccgatctaaa 5341 tccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca 5401 ggtaattctc gcggggaacg cgttcaccgc cgggaaggtc atatttgcag cagtcccacc 5461 aaattttcca actgaaggtt tgagccccag ccaggtcact atgttccccc atatagtagt 5521 agatgttagg caattagaac ctgtgttgat tcccttaccc gatgttagga ataatttcta 5581 tcattataat caatcaaatg accccaccat taagttgata gcaatgttgt acacaccact 5641 tagggccaat 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 ccaactgtct cctgtcaaca tttgcacctt 5941 cagaggagat gtcacccata tcacaggtag tcgtaactac acaatgaatt tggcttctca 6001 gaattggaac aatgttgacc caacagaaga aatcccagcc cctctaggaa ctccagattt 6061 tgtggggaag attcaaggca tgctcaccca aaccacaagg acagatggct caacgcgcgg 6121 ccacaaagcc acagtgtaca ctgggagcgc cgatttttct ccaaaactgg gtagagttca 6181 atttgaaact gacacagacc atgattttga agctaaccaa aacacaaagt tcaccccagt 6241 tggtgtcatc caagatggta gcaccaccca ccgaaatgaa ccccaacagt gggtgctccc 6301 aagctactca ggcagaaata ctcccaatgt gcacctggcc cctgctgtag cccccacttt 6361 tccgggtgag caacttctct tcttcaggtc caccatgccc ggatgcagcg ggtaccccaa 6421 catggatttg gactgtctac tcccccagga atgggtgcag tacttctacc aagaggcagc 6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt 6541 gtttgagtgt aagcttcata aatcaggcta tgtaacagtg gctcacactg gtcaacatga 6601 tttggttatc ccccccaatg gctattttag gtttgattcc tgggtcaacc agttttacac 6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgca ctataatggc tggagctttc 6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg 6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca aaaaattgca acaagcatcc 6841 ttccaattta gcagcaatct acaacaggct tcctttcaac atgacaaaga gatgctccaa 6901 gcacaaattg aggctaccaa aaggctacaa caggaaatga tgaaagttaa gcaggcagtg 6961 ctcctagagg gtgggttctc tgagacagat gcagcccgtg gggcaaccaa cgcccccatg 7021 acaaaagctt tggactggag cgggacaagg tactgggctc ccgatgctag gactacaaca 7081 tacaatgcag gccgcttttc tacccctcaa ccatcaggag cactgccggg aagagctaat 7141 cttagggatg ccgtccctgc tcggggttcc tccagtaagt cttctaactc ttcaactgct 7201 acttctgtgt actcaaatca aactacttca acgagacttg gttctacagc tggttctggc 7261 accagtgtct cgagcttccc gtcaattgca aggactagga gctgggttga ggatcaaagt 7321 aggaatttgt cacctttcat gaggggggct cacaacatat cgttcgtcac cccaccatct 7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagagatttt ggactcctgg 7441 actggcgctt tcaacacgcg caggcagcca ctcttcgccc atattcgtaa gcgaggggag 7501 tcacgggcgt aa //