Typing tool
|
Complete norovirus genomes
MN308014 | GII.4 Sydney | ||
---|---|---|---|
GII.P31 |
ORF1: 1..5103 ORF2: 5084..6706 ORF3: 6706..7512LOCUS MN308014 7512 bp RNA linear VRL 29-JUN-2021 DEFINITION Norovirus GII isolate 137_GII.Pe_GII.4_Nova Olinda nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MN308014 VERSION MN308014.1 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="137_GII.Pe_GII.4_Nova Olinda" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Brazil" /collection_date="24-Sep-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="QED42430.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP KQPPPKEIPPRPPRPPTPELVKKIPPPPPKGEDELVVSYSAKDGVSGLPELTTVRQPE ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS LAKVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEGKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLVDTMKVGKQLKDVKTM SDLKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGC LKPKDDEEFVVSSDDIKTEGKKGKNKSHRTPHHWAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYSSMEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGL VTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVS PSLFVTSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPE GTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPG DCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPIL GPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTE PRGKPPRPNVLEAAKKTIINVLEKKIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDC WNGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSD 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="QED42431.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVVTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGKHDLV 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="QED42432.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANFRDAVPARGSSSKSS TSSTATSVYSNQTTSTRLGSTAGSGTSVSSLSSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 ttgaagatgg cgtctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc 61 gcaaaatctt caagtgacgg tgtgttttct aacatggctg tcacttttaa gcgggccctc 121 ggggcgcggc ctaaacagcc gcccccgaag gagataccac ccagaccccc gcgaccaccc 181 acaccagaat tggtcaaaaa gatccctcct cccccaccca agggggagga tgaactagtg 241 gtctcttaca gcgccaaaga tggcgtttcc ggactgcctg agctcaccac tgtcagacaa 301 ccggaagaaa ccaatacggc gttcagtgtc cccccactca accaaaggga gagcagggac 361 gccaaggagc cactaactgg aacaattatt gaaatgtggg atggagaaat ctaccattac 421 ggcctgtacg tggaacgagg tcttatactt ggtgtgcaca agccaccggc agccatcagc 481 cttgccaagg tcgagctaac accgctctct ttgttctgga gacctgtata caccccccag 541 tatctcatct ctccagatac tcttaggaga ttacatggag agtcattccc ctacactgca 601 tttgacaaca attgctacgc cttttgttgt tgggtattag acctaaacga ctcatggcta 661 agcaggagga tgattcagag aacaacaggt ttcttcaggc cgtaccagga ttggaacagg 721 aaacccctcc ccactatgga tgattccaaa ttaaagaagg tagccaacat attcttgtgc 781 accttgtctt cactattcac cagacccatt aaggacataa tagggaagtt gaaacctctt 841 aacatcctta 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 atacggactg 1141 gaaatcttaa aattggtcat gaagtggttc ttcccaaaga aagaggaggc aaatgaactg 1201 gctatggtga gatccatcga ggacgcagtg ctagatctcg aggcaattga aaacaaccac 1261 atgaccaccc tactcaaaga caaagacagc ttggcaacct acatgagaac ccttgacctt 1321 gaggagggga aagccagaaa actctcaact aaatccgctt cacccgatat tgtgggcaca 1381 atcaactctc ttttggcaag aatcgctgct gcacgctccc tagtgcatcg ggcaaaagaa 1441 gagctctcca gcaggccgag acctgtcgtt gtgatgatat cgggaagacc agggataggg 1501 aaaactcacc ttgccaggga gctggccaag aagatcgcgg cctccctcac aggggaccag 1561 cgcgtgggtc ttatcccacg caatggtgtc gaccactggg acgcatacaa gggcgaaaga 1621 gttgtcctat gggacgacta tggaatgagt aaccccatcc atgatgccct caggttgcag 1681 gaacttgctg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa 1741 gtctttgaca gtgatgccat aattatcacc accaatctgg ccaacccagc accactggat 1801 tatgtcaact ttgaagcgtg ctcgagacgt attgacttcc tcgtgtacgc agaggcccct 1861 gaggtggaga aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc 1921 agtcctgact tctcacacat aaaactgtcg ctggctccac agggtggttt tgacaagaac 1981 ggcaacaccc cgcatggaaa aggggtcatg aagaccctca ctactggctc cctcatcgcc 2041 cgagcatcag ggttactcca tgagaggcta gatgaatatg aactgcaagg cccagccctc 2101 accactttca actttgaccg caacaagata cttgctttta gacagcttgc tgctgaaaac 2161 aagtatgggc tggtggacac aatgaaagtt ggaaaacagc tcaaggatgt caagaccatg 2221 tcagacctca aacaagcact caagaacatc gcgatcaaga agtgccagat agtgtataat 2281 ggtagcacct acacacttga ggccgatggc aagggtagtg 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 accaacaaag atggttgcct aaaacccaaa 2581 gatgatgaag agtttgtcgt ctcatccgac gacatcaaaa ctgagggcaa gaaagggaag 2641 aacaagtctc atcgtactcc tcatcactgg gctttttcaa gcaaagggct cagtgatgag 2701 gagtacgatg agtacaagag aatcagagaa gaaaggaatg gtaagtactc catagaagag 2761 taccttcagg acagagacag gtactcttct atggaggtgg ccatcgccag ggcaaccgaa 2821 gaggacttct gtgaagaaga agaggccaaa atccggcaga gaatttttag accaacaagg 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 ttgtaacatc aacccatgtc 3121 ataccccaag gtgcaaaaga gttcttcgga gtccctatca agcaaatcca ggtacacaaa 3181 tcaggtgaat tctgccgatt gagattccca aagccaatca gaacagatgt gacgggcatg 3241 attctagaag aaggtgcgcc cgagggaacc gtggccacac tgctcatcaa gaggccaact 3301 ggagagctca tgcctctggc agccagaatg ggaacccatg caaccatgaa aattcagggg 3361 cgcacagttg gagggcaaat gggtatgctc ctgacaggat ccaacgccaa gagtatggac 3421 ctaggcacaa caccaggcga ctgcggctgc ccctacatct acaagagggg gaatgactac 3481 gtggtcatag gagtccatac ggccgccgcc cgtggaggaa acactgtcat atgtgccact 3541 caggggagtg agggagaagc cacacttgaa ggaggtgaca gtaaagggac atactgtggc 3601 gcaccgatct tgggcccagg gagcgctccg aagctcagta ccaagaccaa gttttggaga 3661 tcatccacaa caccactccc acctggcacc tacgaaccag cttacctcgg tggcaaagac 3721 cccagagtca aaggtggccc atcactgcaa caagttatga gggaccagct aaagccattc 3781 acagaaccca gaggcaaacc accaaggcca aatgtgttgg aagctgccaa gaaaaccatc 3841 atcaatgtcc ttgagaagaa aattgatcca cctcaaaaat ggtcatttgc gcaagcttgc 3901 gcatcccttg acaaaaccac ctccagcggc cacccgcacc acatgcggaa aaacgattgt 3961 tggaatgggg agtccttcac aggaaaattg gctgatcaag cctccaaggc caacctaatg 4021 tttgaagagg gaaagaacat gactccagtc tacacaggtg cacttaaaga tgagttggta 4081 aaaaccgata aagtttatgg taagatcaag aagaggcttc 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 tcttccttct 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 ggctggtttg gaaaactgga acaaagttca 4801 attctcagac aaatgtactg gaccaggggt cccaaccatg aagatccatt tgaaacaatg 4861 ataccacact cccaaagacc catacaattg atgtccttgt tgggcgaggc tgcactccac 4921 ggcccggcat tttatagcaa aattagcaaa ttagtcattg cagagttgaa ggaaggtggc 4981 atggattttt acgtgcccag acaagagcca atgttcaggt ggatgagatt ctcagatctg 5041 agcacgtggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag 5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgtc ccagaggtca acaatgaggt 5161 tatggctctg gagcccgttg ttggtgccgc cattgcggca cctgtagcgg gccaacaaaa 5221 tgtaattgac ccctggatta gaaacaattt tgtacaagcc cctggtggag agtttacagt 5281 atcccctaga aacgctccag gtgaaatact atggagcgcg cccttgggcc ctgacctaaa 5341 tccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca 5401 ggtaattctc gcggggaacg cgttcaccgc cgggaaggtc atatttgcag cagtcccacc 5461 aaattttcca actgaaggct tgagccccag ccaggtcact atgttccccc atatagttgt 5521 agatgttagg caactagaac ctgtgttgat tcccttaccc gatgttagga ataatttcta 5581 tcattacaat caatcaaatg accccactat taaattgata gcaatgttgt atacaccact 5641 tagggctaat aatgctgggg atgatgtctt cacagtttct tgccgagttg ttacgagacc 5701 atcccccgat tttgatttca tatttctagt gccacccaca gttgaatcaa 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 tggcttctca 6001 aaattggaac aattatgacc caacagaaga aatcccagcc cctctgggaa ctccagactt 6061 tgtggggaag attcaaggtg tgctcaccca aaccacaagg acagatggct cgacacgcgg 6121 ccacaaagcc acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagtaca 6181 atttgaaact gacacagacc atgattttga agctaaccaa aacacaaagt tcaccccagt 6241 cggtgtcatc caagatggta gcaccaccca ccgaaatgaa ccccaacagt gggtgctccc 6301 aagttactca ggcagaaata ctcacaatgt 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 aagctacata aatcaggcta tgttacagtg gctcacactg gcaaacatga 6601 tctggttatt ccccccaatg gttattttag atttgattcc tgggttaacc agttctacac 6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgca gtataatggc tggagctttc 6721 tttgctggat tggcatctga tgtccttggc tccggacttg gttcccttat caatgctggg 6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc 6841 ttccaattta gcagcaatct acaacaggct tcctttcaac 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 gccgcttttc cacccctcaa ccatcggggg cactgccagg aagagctaat 7141 tttagggatg ctgtccctgc tcggggttcc tccagtaagt cttctacctc ttccactgct 7201 acttctgtgt actcaaatca aactacttca acgagacttg gttctacagc tggttctggt 7261 accagtgtct cgagcctctc 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 tcacgggtgt aa //