Typing tool
|
Complete norovirus genomes
MN307993 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5103 ORF2: 5084..6706 ORF3: 6706..7512LOCUS MN307993 7512 bp RNA linear VRL 29-JUN-2021 DEFINITION Norovirus GII isolate 010_GII.Pe_GII.4_Aragominas nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MN307993 VERSION MN307993.1 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="010_GII.Pe_GII.4_Aragominas" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Brazil" /collection_date="18-Dec-2013" /note="genotype: GII.Pe_GII.4" gene 1..5103 /gene="ORF1" CDS 1..5103 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QED42367.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELLVSYSAKDGVSGLPELTTVRQPE ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPSIRS LAKVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEYELQGPALTTFNFDRNKMLAFRQLAAENKYGLIDTMRVGKQLKDVKTM SDLKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGC LKPKDDEEFVVSSDDIKTEGKKGKNKSHRTPHHWAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYSSMEVAITRATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGL VTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVS PSLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPE GTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPG DCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPIL GPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTE PRGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFGQACASLDKTTSSGHPHHMRKNDC WNGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSD LATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRW DSTQQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPC 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="QED42368.1" /translation="MKMASSDANPSDGSAASLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFETNQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD 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="QED42369.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSIPQPSGALPGRANLRDAVPARGSSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 ttgaagatgg cgtctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc 61 gcaaaatctt caagtgacgg tgtgttttct aacatggccg tcacttttaa gcgggccctc 121 ggggcgcggc ctaaacagcc gcccccgaag gagataccac ccagaccccc gcgaccaccc 181 acaccagaat tggtcaaaaa gattcctcct cccccaccca acggggagga tgaactattg 241 gtttcttaca gcgccaaaga tggcgtttcc gggctgcctg agcttaccac tgtcagacaa 301 ccggaagaaa ccaacacggc gttcagcgtt cccccactca accaaaggga gagcagggac 361 gccaaggagc cactaactgg aacaattatt gaaatgtggg atggagaaat ctaccattac 421 ggcctgtacg tggaacgagg tcttatactt ggtgtgcaca agccaccaag tataagaagc 481 cttgccaagg tcgagctaac accgctctct ttgttctgga gacctgtata caccccccag 541 tatctcatct ctccagacac tcttaggaga ttacatggag agtcattccc ctacactgca 601 tttgacaaca attgctacgc cttttgttgt tgggtattag acctaaacga ctcatggcta 661 agcaggagaa tgattcagag aacaacaggt ttcttcaggc cgtaccagga ttggaacagg 721 aaacccctcc ccactatgga tgattccaaa ttgaagaagg tagccaatat attcttgtgc 781 actttgtctt cactattcac cagacccatt aaggacataa tagggaagtt gaaacctctt 841 aacatcctca acattctggc tacatgtgat tggaccttcg caggcatagt ggaatcttta 901 atactcttag cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc 961 gcccccttgc taggtgatta tgaactgcaa ggacctgagg accttgcagt ggaactggtc 1021 ccaatagtga tgggggggat aggtttggtg ctaggattta ccaaagagaa aattggaaag 1081 atgctatcat ccgctgcatc cactttaaga gcttgtaaag accttggtgc atacggattg 1141 gaaatcttaa aattggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg 1201 gctatggtga gatccatcga ggacgcagta ctagacctcg aggcaattga aaacaaccac 1261 atgaccaccc tactcaaaga caaagacagc ttagcaacct acatgagaac ccttgacctt 1321 gaggaggaga aagccagaaa actctcaact 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 cgtgtgggac ttatcccacg caatggtgtc gatcattggg acgcatacaa gggcgaaaga 1621 gttgtcctat gggacgacta tggaatgagc aaccccatcc atgatgccct caggttgcaa 1681 gagcttgccg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa 1741 gtctttgaca gtgatgccat aattatcacc accaatctgg ccaacccagc accactggat 1801 tacgtcaact ttgaagcgtg ctcgagacgt atcgacttcc tcgtgtacgc agaagcccct 1861 gaggtggaga aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc 1921 agtcctgact tctcacacat aaaactgtca ttggctccac agggtggttt tgacaagaac 1981 ggcaacaccc cgcatggaaa aggggtcatg aagaccctca ctactggctc cctcatcgcc 2041 cgagcatcag ggttactcca tgagaggcta gatgaatatg aactgcaagg cccagccctc 2101 accactttca actttgaccg aaacaagatg cttgctttta gacagcttgc tgctgaaaac 2161 aagtatgggc tgatagacac aatgagagtt ggaaaacagc tcaaggatgt caagaccatg 2221 tcagacctca aacaagcact caagaacatc gcgatcaaga agtgccagat agtgtacaat 2281 ggtagcacct acacacttga ggccgatggc aagggtagtg tgaaagttga caaagtgcaa 2341 agtgccactg tgcagaccaa caatgaacta gccggtgccc tacaccacct aaggtgcgct 2401 agaatcagat actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct 2461 ggggctgcat tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtcc 2521 aagccacagg tggaagacac agaagagatg accaacaaag atggttgcct aaaacccaaa 2581 gatgatgaag agtttgtcgt ctcatccgac gacatcaaaa ctgagggcaa gaaagggaag 2641 aacaagtctc atcgtactcc tcatcactgg gccttttcaa gcaaagggct cagtgatgag 2701 gagtacgatg agtacaagag aatcagagaa gaaaggaatg gtaagtactc catagaagaa 2761 taccttcagg acagagacag gtactcttct atggaggtgg ccattaccag ggcaaccgaa 2821 gaggacttct gtgaagaaga agaggccaaa atccggcaga gaatttttag accaacaagg 2881 aaacaacgca aagaagagag ggcctctctc ggcttggtca caggctctga aatcaggaag 2941 agaaacccag aagacttcaa acccaaggga aagctgtggg ctgatgatga cagaagtgtt 3001 gattacaatg agaaactcaa ctttgaggcc ccaccaagca tctggtcgcg gatagtcaac 3061 tttggctcag gctggggctt ctgggtctcc cccagtctgt ttataacatc aacccatgtc 3121 ataccccaag gtgcaaaaga gttcttcgga gtccctatca agcaaatcca gatacacaaa 3181 tcaggtgaat tttgccggtt gagattccca aagccaatca gaactgatgt gacgggcatg 3241 attctagaag aaggtgcgcc cgaggggacc gtggccacac tgctcatcaa gagaccaact 3301 ggagagctca tgcctctggc agccagaatg gggacccatg caaccatgaa aattcagggg 3361 cgcacagttg gagggcaaat gggtatgctc ctgacaggct ccaacgccaa gagtatggac 3421 ctaggcacaa caccaggcga ctgcggctgc ccctacatct acaagagggg gaatgactac 3481 gtggtcatag gagtccatac ggccgctgcc cgtgggggaa acactgtcat atgtgccacc 3541 caggggagtg agggagaggc cacacttgaa ggaggtgaca gtaaagggac atactgtggc 3601 gcaccaatct tgggcccagg gagcgctccg aagctcagta ccaagactaa gttttggaga 3661 tcatccacaa caccactccc acctggcacc tacgaaccag cctacctcgg tggcagagac 3721 cccagagtca aaggtggccc ttcattgcaa caagttatga gggaccagct aaagccattc 3781 acagaaccca gaggcaaacc accaagacca aatgtgttgg aagctgccaa gaaaaccatc 3841 atcaatgtcc ttgagcaaac aattgatcca ccccaaaaat ggtcatttgg gcaagcttgc 3901 gcatcccttg acaaaaccac ctccagcggc cacccgcacc acatgcggaa aaacgattgt 3961 tggaatgggg agtccttcac aggaaaattg gctgatcaag cctccaaggc caacctaatg 4021 tttgaagagg gaaagaatat gactccagtc tacacaggtg cacttaaaga tgagttggta 4081 aagaccgata aagtttatgg taaggtcaag aagaggctcc tgtggggttc agatctggcg 4141 accatgatac gatgcgcccg agcttttgga ggccttatgg atgaactcaa ggcgcactgt 4201 gtcacacttc ctgtcagagt tggtatgaac atgaatgagg atggccccat catctttgag 4261 aagcactcca gatatagata tcactatgat gctgattatt cccggtggga ctcaacacaa 4321 caaagggatg tgctagcagc agcactagaa atcatggtta agttctctcc agaaccacac 4381 ctggcccagg tagttgcaga agacctcctt tcccctagcg taatggatgt aggtgacttt 4441 caaatatcaa taagtgaggg tctcccctct ggggtacctt gtacctccca gtggaattcc 4501 atcgcccact ggctcctcac tctgtgtgca ctctctgaag tcacggacct gtcccctgac 4561 atcattcagg ccaactccct tttctccttc tatggtgatg atgagattgt gagcacagat 4621 ataaagttgg acccagagaa gctgacagca aaactcaagg agtacgggct gaaaccaacc 4681 cgccccgaca aaactgaagg accccttgtt atctctgaag acctggatgg cctgacattc 4741 ctccggagaa ctgtgacccg tgatccagct ggctggtttg gaaaattgga acaaagttca 4801 attctcagac aaatgtactg gaccaggggt cccaaccatg aagatccatt tgaaacaatg 4861 ataccacact cccaaagacc catacaattg atgtccttgc tgggcgaggc tgcactccac 4921 ggcccggcat tttatagcaa aattagcaaa ttagtcattg cagagttgaa ggaaggtggc 4981 atggattttt acgtgcccag acaagagcca atgttcagat ggatgagatt ctcagatctg 5041 agcacgtggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag 5101 tgacgccaac ccatctgatg ggtccgcagc cagcctcgtc ccagaggtca acaatgaggt 5161 tatggctctg gagcccgttg ttggtgccgc tattgcggca cctgtagcgg gccaacaaaa 5221 tgtaattgac ccctggatta gaaacaattt tgtacaagcc cctggtggag agtttacagt 5281 atcccctaga aacgctccag gtgaaatact atggagcgcg cccttgggcc ctgatctaaa 5341 cccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca 5401 agtgattctc gcggggaacg cgttcaccgc cgggaaggtc atatttgcag cagtcccacc 5461 aaattttcca actgaaggct tgagtcccag ccaggtcact atgttccccc atatagtagt 5521 agatgttagg caactagaac ctgtgttgat tcccttaccc gatgttagga ataatttcta 5581 tcattataat caatcaaatg atcccaccat taagttgata gcaatgttgt atacaccact 5641 tagggctaat aatgctgggg atgatgtctt cacagtttct tgccgagttc tcacgagacc 5701 atcccctgat tttgatttca tatttctagt gccacccaca gttgaatcaa gaactaaacc 5761 attctctgtc ccagttttaa ctgttgagga gatgaccaat tcaagattcc ctattccttt 5821 ggaaaagttg ttcacgggtc ccagcagtgc ctttgttgtt caaccacaaa acggcaggtg 5881 cacaactgat ggcgtgctcc taggcaccac ccaactgtct cctgtcaaca tctgcacctt 5941 cagaggagat gtcacccaca tcacaggcag tcgtaactac acaatgaatt tggcttctca 6001 aaattggaac aattatgacc caacagaaga aatcccagcc cctctaggaa ctccagactt 6061 tgtggggaag attcaaggcg tgctcaccca aaccacaagg acagatggct caacacgcgg 6121 ccacaaagcc acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagttca 6181 atttgaaact gacacagacc atgattttga aactaaccaa aacacaaagt tcaccccagt 6241 tggtgtcatc caagatggta gcaccaccca ccgaaatgaa ccccaacagt gggtgctccc 6301 aagttactca ggcagaaata ctcataatgt gcatctggcc cccgctgtag cccccacctt 6361 tccgggtgag caactcctct tcttcaggtc caccatgccc ggatgcagcg ggtaccccaa 6421 catggatttg gactgtctgc tcccccagga atgggtgcag tatttctacc aagaggcagc 6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt 6541 gtttgagtgt aagcttcata aatcaggcta tgttacagtg gctcacactg gccaacatga 6601 tctggttatt ccccccaatg gttattttag atttgattcc tgggtcaacc agttctacac 6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgca gtataatggc tggagctttc 6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg 6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaactgca acaagcatcc 6841 tttcaattta gcagcaacct acaacaggct tcctttcaac atgacaaaga gatgctccaa 6901 gcacaaattg aggccaccaa aaagctacaa caggaaatga tgaaagttaa gcaggcaatg 6961 ctcctagagg gtgggttctc tgagacagat gcagcccgcg gggcaatcaa cgcccccatg 7021 acaaaagctt tggactggag cgggacaagg tactgggccc ccgatgctag gactacaaca 7081 tacaatgcag gccgcttttc catccctcaa ccatcggggg cactgccagg aagagctaat 7141 cttagggatg ctgtccctgc tcggggttcc tccagtaaat cttctaactc ttctactgct 7201 acttctgtgt actcaaatca aactacttca acgagacttg gttctacagc tggttctggt 7261 accagtgtct cgagcctccc gtcaactgca aggactagga gctgggttga ggatcaaagt 7321 aggaatttgt cacctttcat gaggggggcc cacaacatat cgtttgtcac cccaccatct 7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagaggtttt ggactcctgg 7441 actggcgctt tcaacacgcg caggcagcca ctcttcgctc acattcgtaa gcgaggggag 7501 tcacgggcgt aa //