Typing tool
|
Complete norovirus genomes
MN308012 | GII.4 Sydney | ||
---|---|---|---|
GII.P31 |
ORF1: 1..5103 ORF2: 5084..6706 ORF3: 6706..7512LOCUS MN308012 7512 bp RNA linear VRL 29-JUN-2021 DEFINITION Norovirus GII isolate 123_GII.Pe_GII.4_Araguaina nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MN308012 VERSION MN308012.1 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="123_GII.Pe_GII.4_Araguaina" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Brazil" /collection_date="31-Aug-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="QED42424.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGMFSNMAVTFKRALGARP KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS LARVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LKPLNILNILATCDWTFAGIVESLILLAELFGIFWTPPDVSAMIAPLLGDYELQGPED LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLVDTMRVGKQLKDVKTM SDLKQALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGC LKPKDDEEFVVSSDDIKTEGKKGKNKSHRTPHHWAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLPVRDRYSSMELAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGL VTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVS PSLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTGVTGMILEEGAPE GTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPG DCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPIL GPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTE PRGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDC 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="QED42425.1" /translation="MKMASSDANPSDGSAANLVPEINNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD 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="QED42426.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSF NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRSLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 ttgaagatgg cgtctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc 61 gcaaaatctt caagtgacgg tatgttttct aacatggctg tcacttttaa gcgggccctc 121 ggggcgcggc ctaaacagcc gcccccgaag gaaataccac 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 cttgccaggg tcgagctagc accgctctct ttgttctgga gacctgtata caccccccag 541 tatctcatct ccccagacac tcttaggaga ctacatggag agtcattccc ctacactgca 601 tttgacaaca attgctacgc cttttgttgc tgggtgttag acctaaacga ctcatggcta 661 agcaggagaa tgattcagag aacaacaggc ttcttcaggc cgtaccagga ttggaacagg 721 aaacccctcc ccactatgga tgattccaaa ttaaagaagg tagccaacat attcttgtgc 781 actttgtctt cactattcac cagacccatt aaggacataa tagggaaatt gaaacctctt 841 aacatcctta acattctggc tacatgtgat tggaccttcg caggcatagt ggaatcctta 901 atactcttgg cagaactctt tggaattttc tggacacccc cagatgtgtc tgcgatgatc 961 gcccccttgc taggtgatta tgaactgcaa ggacctgagg accttgcagt ggaactggtc 1021 ccaatagtga tgggggggat aggtttggtg ctaggattta ccaaagagaa aatcggaaaa 1081 atgctatcat ccgctgcatc cactttaaga gcttgtaaag accttggtgc atacggactg 1141 gaaatcttaa aattggttat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg 1201 gctatggtga gatccatcga ggatgcagtg ttagacctcg aggcaattga aaacaatcac 1261 atgaccaccc tactcaaaga caaagacagc ttggcaacct acatgagaac ccttgacctt 1321 gaggaggaga aagccagaaa actctcaacc aaatctgcct cacccgatat tgtgggcaca 1381 atcaactctc ttctggcaag aatcgctgct gcacgctccc tagtgcatcg ggcgaaagaa 1441 gagctctcca gcaggccgag acctgtcgtt gtgatgatat cgggaaggcc agggataggg 1501 aaaactcacc ttgccaggga gctggccaag aagatcgcgg cctccctcac aggggaccag 1561 cgtgtgggcc ttatcccacg caatggtgtc gaccattggg acgcatacaa gggcgaaaga 1621 gttgtcctat gggacgacta tggaatgagc aaccccatcc atgacgccct caggttgcag 1681 gagcttgctg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa 1741 gtctttgaca gtgatgccat aatcatcacc accaatctgg ccaacccagc accactggat 1801 tatgtcaact ttgaagcgtg ctcgagacgt attgatttcc tcgtgtacgc agaagcccct 1861 gaggtggaga aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc 1921 agtcctgact tctcacacat aaaactgtca ttggctccac agggtggttt tgacaagaac 1981 ggcaacaccc cgcatggaaa aggggtcatg aagaccctca ccactggctc cctcatcgcc 2041 cgagcatcag ggttactcca tgagaggcta gatgaatatg aactgcaagg cccagccctc 2101 accaccttca actttgaccg caacaagata cttgctttta gacagcttgc tgctgaaaac 2161 aagtatgggc tggtggacac aatgagagtt ggaaaacagc tcaaggatgt caagaccatg 2221 tcagacctca aacaagcgct caagaacatc gcgatcaaga agtgccaaat agtgtacaat 2281 ggtggcacct acacacttga ggctgatggc aagggtagtg tgaaagttga caaagtgcaa 2341 agcgccactg tgcagaccaa caatgaacta gccggtgccc tacaccacct aaggtgcgct 2401 agaatcagat actatgtcaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct 2461 ggggctgcat tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtcc 2521 aagccacagg tggaagacac agaagagatg gccaacaaag atggttgcct aaaacccaaa 2581 gatgatgagg agtttgtcgt ctcatccgac gacatcaaaa ctgagggcaa gaaagggaag 2641 aacaagtctc atcgtactcc tcatcactgg gccttttcaa gtaaaggact cagtgatgag 2701 gagtacgatg agtacaagag aatcagagaa gaaaggaatg gtaagtactc catagaagag 2761 taccttccgg tcagagacag gtactcttct atggagttgg ccattgccag ggcaaccgaa 2821 gaggacttct gtgaagaaga agaggccaaa atccggcaga gaattttcag accaacaagg 2881 aaacaacgca aagaagagag ggcctctctc ggcttggtca caggctctga aatcaggaaa 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 aatacacaag 3181 tcaggtgaat tctgccggtt gagattccca aagccaatca gaactggtgt gacgggcatg 3241 attctagaag aaggtgcgcc cgaggggacc gtggccacac tgctcatcaa gagaccaact 3301 ggagagctca tgcccctggc agccagaatg gggacccatg caaccatgaa aattcagggg 3361 cgcacagttg gagggcaaat gggtatgctc ctgacaggat ccaacgccaa gagtatggac 3421 ctaggcacaa caccaggcga ctgcggctgc ccctacatct acaagagggg gaatgactac 3481 gtggtcatag gagtccatac ggccgctgcc cgtggaggaa acactgtcat atgtgccacc 3541 caggggagtg agggagaagc cacacttgaa ggaggtgaca gtaaagggac atactgtggc 3601 gcaccaatct tgggcccggg gagcgctccg aagctcagca ccaagactaa gttttggaga 3661 tcatccacaa caccactccc acctggcacc tacgaaccag cctacctcgg tggcaaagac 3721 cctagagtca aaggtggccc ttcattgcaa caagttatga gggaccagct gaagccattc 3781 acagaaccca gaggcaaacc accaagacca aatgtgttgg aagctgccaa gaaaaccatc 3841 atcaatgtcc ttgagcaaac aattgatcca ccccaaaaat ggtcatttgc gcaagcttgc 3901 gcatcccttg acaaaaccac ctccagcggc cacccgcacc acatgcggaa aaacgactgt 3961 tggaatgggg agtccttcac aggaaaattg gctgaccaag cctccaaggc caatctaatg 4021 tttgaggagg gaaagaacat gactccagtc tacacaggtg cacttaaaga tgagttggta 4081 aagaccgata aagtttatgg taaggtcaag aagaggcttc tgtggggttc agatctagcg 4141 accatgatac ggtgcgcccg agcttttgga ggccttatgg atgaactcaa ggcacactgt 4201 gtcacacttc ctgtcagagt tggtatgaac atgaatgagg atggccccat catctttgag 4261 aagcactcca gatatagata tcactatgat gctgattatt cccggtggga ctcaacacaa 4321 caaagggatg tactagcagc agcactagaa atcatggtta agttctctcc agaaccacac 4381 ctggcccaga tagttgcaga agacctcctt tcccctagcg tgatggatgt aggtgacttt 4441 caaatatcaa taagtgaggg tctcccctct ggggtacctt gtacctccca gtggaattcc 4501 atcgcccact ggctcctcac tctgtgtgca ctctctgaag tcacggacct gtcccctgat 4561 atcattcagg ccaactccct tttctccttc tatggtgatg atgagattgt aagcacagat 4621 ataaagttgg acccagagaa gctgacagca aaactcaagg agtacgggct gaaaccaacc 4681 cgccccgaca aaactgaagg accccttgtt atctctgaag acctggatgg cctgacattc 4741 ctccggagaa ctgtgacccg tgatccagct ggctggtttg gaaaattgga gcaaagttca 4801 attctcaggc aaatgtactg gaccaggggt cccaaccatg aggacccatt tgaaacaatg 4861 ataccacact cccaaagacc catacaattg atgtccttgc 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 ccagagatca acaatgaggt 5161 tatggctctg gagcccgttg taggtgccgc cattgcggca cctgtagcgg gccaacaaaa 5221 tgtaattgac ccctggatta gaaataattt tgtacaagcc cctggtggag agttcacagt 5281 gtcccctaga 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 ggatgttagg caactagaac ctgtgttgat tcccttaccc gatgttagga ataatttcta 5581 ccattacaat caatcaaatg accccaccat taagttgata gcaatgttgt atacaccact 5641 tagggctaat aatgctgggg atgatgtctt cacagtttcc tgccgagttc tcacgagacc 5701 gtcccccgat 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 tctgcacctt 5941 cagaggagat gtcacccata tcacaggtag tcataactac acaatgaatt tggcttctca 6001 aaattggagc aattatgacc caacagaaga aatcccagcc cctctaggaa ctccagattt 6061 tgtggggaag atccagggcg tgctcaccca aaccacaagg acagatggct caacacgcgg 6121 ccacaaagcc acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagttca 6181 atttgaaact gacacagacc atgattttga agccaaccaa aacacaaagt tcaccccagt 6241 tggtgtcatc caagatggtg gcaccaccca ccgaaatgaa ccccaacagt gggtgctccc 6301 aagttactca ggcagaaata ctcccaatgt gcatctggcc cccgctgtag cccccacttt 6361 tccgggtgag caacttctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa 6421 catggatttg gactgtctgc tcccccagga atgggtgcag tacttctacc aagaggcggc 6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt 6541 gtttgagtgt aagcttcata aatcaggcta tgttacagtg gctcacactg gccaacatga 6601 tttggttatt ccccccaatg gttattttag gtttgattcc tgggtcaacc agttttacac 6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgca ctataatggc tggagctttc 6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg 6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaggcatcc 6841 ttccaattta gcagcaatct acaacaggct tcctttcaac atgacaaaga gatgctccaa 6901 gcacaaattg aggccaccaa aaggctacaa caggaaatga tgaaagttaa gcaggcaatg 6961 ctcctagagg gtgggttctc tgagacagat gcagcccgcg gggcaatcaa cgcccccatg 7021 acaaaagctt tggactggag cgggacaagg tactgggctc ccgatgctag gactacaaca 7081 tacaatgcag gccgcttttc cacccctcaa ccatcggggg cactgccagg aagagctaat 7141 ctcagggatg ctgtccctgc tcggggttcc tccagtaagt cttttaattc ttccactgct 7201 acttctgtgt actcaaatca aactacttca acgagacttg gttctacagc tggttctggc 7261 accagtgtct cgagcttccc gtcaactgca aggactagga gctgggttga ggatcaaagt 7321 aggagtttgt cacctttcat gaggggggcc cacaacatat cgtttgtcac cccaccatct 7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagagatttt ggactcctgg 7441 actggcgctt tcaacacgcg caggcagcca ctcttcgctc acattcgtaa gcgaggggag 7501 tcacgggcgt aa //