Typing tool
|
Complete norovirus genomes
MN308006 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5096 ORF2: 5077..6699 ORF3: 6699..7505LOCUS MN308006 7505 bp RNA linear VRL 29-JUN-2021 DEFINITION Norovirus GII isolate 078_GII.Pe_GII.4_Araguaina nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MN308006 VERSION MN308006.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7505) 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 7505) 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..7505 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="078_GII.Pe_GII.4_Araguaina" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Brazil" /collection_date="16-Apr-2013" /note="genotype: GII.Pe_GII.4" gene <1..5096 /gene="ORF1" CDS <1..5096 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QED42406.1" /translation="ASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQP PPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETN TAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAK VELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLS RRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKP LNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAV ELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE EANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSA SPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKK IAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLT LNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKR DFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASEL LHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMKVGKQLKDVKTMSDL KQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCAR IRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTSKDGCLKP KDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS IEEYLQDRDRYYEEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTG SEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL FITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPG SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRG KPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNG ESFTGKLADQASKANLMFGEGKNMTPVYTGALKDELVKTDKVYAKIKKRLLWGSDLAT MIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDST QQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQ WNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEY GLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNH EDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPM FRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide <1..983 /gene="ORF1" /product="p48" mat_peptide 984..2081 /gene="ORF1" /product="NTPase" mat_peptide 2082..2618 /gene="ORF1" /product="p22" mat_peptide 2619..3020 /gene="ORF1" /product="VPg" mat_peptide 3021..3563 /gene="ORF1" /product="Pro" mat_peptide 3564..5093 /gene="ORF1" /product="RdRp" gene 5077..6699 /gene="ORF2" CDS 5077..6699 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QED42407.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLGSSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV" gene 6699..7505 /gene="ORF3" CDS 6699..7505 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QED42408.1" /translation="MAGAFFAGLASDVLGSWLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGVLPGRANLRDAVPARGSSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 tggcgtctaa cgacgcttcc gctgccgctg ttgccaacag caacaacgac atcgcaaaat 61 cttcaagtga cggtgtgttt tctaacatgg ctgtcacttt taagcgggcc ctcggggcgc 121 ggcctaaaca gccgcccccg aaggagatac cacccagacc cccgcgacca cccacaccag 181 aattggtcaa aaagatccct cctcccccac ccaacgggga ggatgaacta gtggtctctt 241 acagcgccaa agatggcgtt tccggactgc ctgagctcac cactgtcaga caaccggaag 301 aaaccaacac ggcgttcagt gtccccccac tcaaccaaag ggagagcagg gacgccaagg 361 agccactaac tggaacaatt attgaaatgt gggatggaga aatctaccat tacggcctgt 421 acgtggaacg aggtcttata cttggtgtgc acaagccacc ggcagccatc agccttgcca 481 aggtcgagct aacaccgctc tctttgttct ggagacctgt atacaccccc cagtatctca 541 tctctccaga cactcttagg agattacatg gagagtcatt cccctacact gcatttgaca 601 acaattgcta cgccttttgt tgttgggtat tagacctaaa cgactcatgg ctgagcagga 661 gaatgattca gagaacaaca ggtttcttca ggccgtacca ggattggaac aggaaacccc 721 tccccactat ggatgattcc aaattaaaga aggtagccaa catattcttg tgcactttgt 781 cttcactatt caccagaccc attaaggaca taatagggaa gttgaaacct cttaacatcc 841 ttaacattct ggctacatgt gattggacct tcgcaggcat agtggaatct ttaatactct 901 tagcagaact ctttggagtt ttctggacac ccccagatgt gtctgcgatg atcgccccct 961 tgctaggtga ttatgaactg caaggacctg aggaccttgc agtggaactg gtcccaatag 1021 tgatgggggg gataggtttg gtgctaggat ttaccaaaga gaaaattgga aagatgctat 1081 catccgctgc atccacttta agagcttgta aagaccttgg tgcatacgga ctggaaatct 1141 taaaattggt catgaagtgg ttcttcccaa agaaagagga ggcaaatgaa ctggctatgg 1201 tgagatccat cgaggacgca gtgctagacc ttgaggcaat tgaaaacaac cacatgacca 1261 ccctactcaa agacaaagac agcttggcaa cctacatgag aacccttgac cttgaggagg 1321 agaaagccag aaaactctca accaaatctg cttcacccga tattgtgggc acaatcaact 1381 ctcttctggc aagaatcgct gctgcacgct ccctagtgca tcgggcgaaa gaagagctct 1441 ccagcaggcc gagacctgtc gttgtgatga tatcgggaag accagggata gggaaaactc 1501 accttgccag ggagctggcc aagaagatcg cggcctccct cacaggggac cagcgtgtgg 1561 gtcttatccc acgcaatggt gtcgaccact gggacgcata caagggcgaa agagttgtcc 1621 tatgggacga ctatggaatg agcaacccca tccatgatgc cctcaggttg caggagcttg 1681 ctgacacttg ccccctcacg ctaaattgtg acagaattga gaacaaaggg aaagtctttg 1741 acagtgatgc cataattatc accaccaatc tggccaaccc agcaccactg gattatgtca 1801 actttgaagc gtgctcgaga cgtattgatt tcctcgtgta cgcagaagcc cctgaggtgg 1861 agaaggcaaa gcgcgacttc ccaggtcaac ctgacatgtg gaagaacgct ttcagtcctg 1921 acttctcaca cataaaactg tcattggctc cccagggtgg ttttgacaag aacggcaaca 1981 ccccgcatgg aaaaggggtc atgaagaccc tcaccactgg ctccctcatc gcccgagcat 2041 cagagttact ccatgagagg ctagatgaat atgaactgca aggcccagcc ctcaccactt 2101 tcaactttga ccgaaacaag atacttgctt ttagacagct tgctgctgaa aacaagtatg 2161 ggctgatgga cacaatgaaa gttggaaaac aactcaagga tgtcaagacc atgtcagacc 2221 tcaaacaagc actcaagaac atcgcgatca agaagtgcca gatagtgtac aatggtagca 2281 cctacacact tgaggccgat ggcaagggta gtgtgaaagt tgacaaagtg caaagtgcca 2341 ctgtgcagac caacaatgaa ctagccggtg ccctacacca cctaaggtgc gctagaatca 2401 gatactatgt taagtgcgtc caggaggcac tgtattccat catccaaatc gctggggctg 2461 cattcgtcac cacgcgcatc gctaagcgca tgaatataca gaatctctgg tccaagccac 2521 aggtggaaga cacagaagag atgaccagca aagatggttg cctaaaaccc aaagatgatg 2581 aagagtttgt cgtctcatcc gacgacatca aaactgaggg caagaaaggg aagaacaagt 2641 ccggccgtgg caagaagcac acagcctttt caagcaaagg gctcagtgat gaggagtacg 2701 atgagtacaa gagaatcaga gaagaaagga atggtaagta ctccatagaa gagtaccttc 2761 aggacagaga caggtactac gaggaggagg tggccattgc cagggcaacc gaagaggact 2821 tctgtgaaga agaagaggcc aaaatccggc agagaatttt tagaccaaca aggaaacaac 2881 gcaaagaaga gagggcctct ctcggcttgg tcacaggctc tgaaatcagg aagagaaacc 2941 cagaagactt caaacccaag ggaaagctgt gggctgatga tgacagaagt gttgactaca 3001 atgagaaact caactttgag gccccaccaa gcatttggtc gcggatagtc aactttggtt 3061 caggctgggg cttctgggtc tcccccagtc tgtttataac atcaacccat gtcatacccc 3121 aaggtgcaaa agagttcttc ggagtcccta tcaagcaaat ccagatacac aaatcaggtg 3181 aattctgccg gttgagattc ccaaagccaa tcagaactga tgtgacgggc atgattctag 3241 aagaaggtgc gcccgaggga accgtggcca cactgctcat caagagacca actggagagc 3301 tcatgccttt ggcagccaga atggggaccc atgcaaccat gaaaattcag gggcgcacag 3361 ttggagggca aatgggtatg ctcctgacag gatccaacgc caagagtatg gacctaggca 3421 caacaccagg cgactgcggc tgcccctaca tctacaagag ggggaatgac tacgtggtca 3481 taggagtcca tacggccgct gcccgtggag gaaacactgt catatgtgcc actcagggga 3541 gtgagggaga agccacactt gaaggaggtg acagtaaagg gacatactgt ggcgcaccaa 3601 tcttgggccc agggagcgct ccgaagctca gtaccaagac taagttttgg agatcatcca 3661 caacaccact cccacctggc acctacgaac cagcctacct cggtggcaaa gaccccagag 3721 tcaaaggtgg cccttcattg caacaagtta tgagggacca gctgaagcca ttcacagaac 3781 ccagaggcaa accaccaagg ccaaatgtgt tggaagctgc caagaaaacc atcatcaatg 3841 tccttgagca aacaattgat ccaccccaaa aatggtcatt tgcgcaagct tgcgcatccc 3901 ttgacaaaac cacctccagc ggccacccgc accacatgcg gaaaaacgat tgttggaatg 3961 gggagtcctt cacaggaaaa ttggctgatc aagcctccaa ggccaaccta atgtttggag 4021 agggaaagaa catgactcca gtctacacag gtgcacttaa agatgagttg gtaaagaccg 4081 ataaagttta tgctaagatc aagaagaggc tcctgtgggg ttcagatctg gcgaccatga 4141 tacggtgcgc ccgagctttt ggaggcctta tggatgaact caaggcgcac tgtgtcacac 4201 ttcctgtcag agttggtatg aacatgaatg aggatggccc catcatcttt gagaagcact 4261 ccagatatag atatcactat gatgctgatt attcccggtg ggactcaaca caacaaaggg 4321 atgtgctagc agcagcacta gaaatcatgg ttaagttctc tccagaacca cacctggccc 4381 aggtagttgc agaagacctc ctttccccta gcgtgatgga tgtaggtgac tttcaaatat 4441 caataagtga gggtcttccc tctggggtac cttgcacctc ccagtggaat tccatcgccc 4501 actggctcct cactctttgt gcactctctg aagtcacgga cctgtcccct gacattattc 4561 aggccaactc ccttttctcc ttttatggtg atgatgagat tgtaagcaca gacataaagt 4621 tggacccaga gaagctgaca gcaaaactca aggagtacgg gctgaaacca acccgccccg 4681 acaaaactga aggacccctt gttatctctg aagacctgga tggcctgaca ttcctccgga 4741 gaactgtgac ccgtgatcca gctggctggt ttggaaaatt ggaacaaagt tcaattctca 4801 gacaaatgta ctggaccagg ggtcccaacc atgaagatcc atttgaaaca atgataccac 4861 actcccaaag acccatacaa ttgatgtcct tgctgggcga ggctgcactc cacggcccgg 4921 cattttacag caaaattagc aaattagtca ttgcagagtt gaaggaaggt ggcatggatt 4981 tttacgtgcc cagacaagag ccaatgttca gatggatgag attctcagat ctgagcacgt 5041 gggagggcga tcgcaatctg gctcccagtt ttgtgaatga agatggcgtc gagtgacgcc 5101 aacccatctg atgggtccgc agccaacctc gtcccagagg tcaacaatga ggttatggct 5161 ctggagcccg ttgttggtgc cgccattgcg gcacctgtag cgggccaaca aaatgtaatt 5221 gacccctgga ttagaaataa ttttgtacaa gcccctggtg gagagttcac agtgtcccct 5281 agaaacgctc caggtgaaat actatggagc gcgcccctgg gccctgatct aaatccctac 5341 ctatcccatt tggccagaat gtacaatggt tatgcaggtg gttttgaagt gcaggtaatt 5401 ctcgcgggga acgcgttcac cgccgggaag gtcatatttg cagcagtccc accaaatttt 5461 ccaactgaag gcttgggctc aagccaggtc actatgttcc cccatatagt agtagatgtt 5521 aggcaactag aacctgtgtt gattccctta cccgatgtta ggaataattt ctatcattac 5581 aatcaatcaa atgaccccac cattaagttg atagcaatgt tgtatacacc acttagggct 5641 aataatgctg gggatgatgt cttcacagtt tcttgccgag ttctcacgag accatccccc 5701 gattttgatt tcatattttt agtgccaccc acagttgagt caagaactaa accattctct 5761 gtcccagttt taactgttga ggagatgacc aattcaagat tccccattcc tttggaaaag 5821 ttgttcacgg gtcccagcag tgcctttgtt gtccaaccac aaaacggtag gtgcacgact 5881 gatggcgtgc tcctaggcac cacccaactg tctcctgtca acatctgcac cttcagagga 5941 gatgtcaccc atatcacagg tagtcgtaac tacacaatga atttggcttc tcaaaattgg 6001 aacaattatg acccaacaga agaaatccca gcccctctag gaactccaga ctttgtgggg 6061 aagattcaag gcgtgctcac ccaaaccaca aggacagatg gctcaacacg cggtcacaaa 6121 gccacagtgt acactgggag cgccgacttt gctccaaaac tgggtagagt acaatttgaa 6181 actgacacag accatgattt tgaagctaac caaaacacaa agttcacccc agttggtgtc 6241 atccaagatg gtggcaccac ccaccgaaat gaaccccaac agtgggtgct cccaagttac 6301 tcaggcagaa atactcataa tgtgcatctg gcccccgctg tagcccccac ttttccgggt 6361 gagcaacttc tcttctttag atccaccatg cccggatgca gcgggtaccc caacatggat 6421 ttggactgtc tgctccccca ggaatgggtg cagtacttct accaagaggc agccccagca 6481 caatctgatg tggctctgct aagatttgtg aatccagaca caggtagggt tttgtttgag 6541 tgtaagcttc ataaatcagg ctatgttaca gtggctcaca ctggccaaca tgatttggtt 6601 attcccccca atggttattt tagatttgat tcctgggtca accagttcta cacgcttgcc 6661 cccatgggaa atggaacggg gcgtagacgt gcagtataat ggctggagct ttctttgctg 6721 gattggcatc tgatgtcctt ggctcttggc ttggttccct tatcaatgct ggggctgggg 6781 ccatcaacca aaaagttgag tttgaaaata acagaaaatt gcaacaagca tccttccaat 6841 ttagcagcaa tctacaacag gcttcctttc aacatgacaa agagatgctt caagcacaaa 6901 ttgaggccac caaaaggcta caacaggaaa tgatgaaagt taagcaggca atgctcctag 6961 agggtgggtt ctctgagacg gatgcagccc gcggggcaat caacgccccc atgacaaaag 7021 ctttggactg gagcgggaca aggtactggg ctcccgatgc taggactaca acatacaatg 7081 caggccgctt ttccacccct caaccatcgg gggtactgcc aggaagagct aatcttaggg 7141 atgctgtccc tgctcggggt tcctccagta aatcttctaa ctcttctact gctacttctg 7201 tgtactcaaa tcaaactact tcaacgagac ttggttctac agctggttct ggtaccagtg 7261 tctcgagcct cccgtcaact gcaaggacta ggagctgggt tgaggatcaa agtaggaatt 7321 tgtcaccttt catgaggggg gcccacaaca tatcgtttgt caccccacca tctagcagat 7381 cctctagcca aggcacagtc tcaaccgtgc ctaaagaggt tttggactcc tggactggcg 7441 ctttcaacac gcgcaggcag ccactcttcg ctcacattcg taagcgaggg gagtcacggg 7501 cgtaa //