Typing tool
|
Complete norovirus genomes
MN308005 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..4994 ORF2: 4975..6597 ORF3: 6597..7403LOCUS MN308005 7403 bp RNA linear VRL 29-JUN-2021 DEFINITION Norovirus GII isolate 074_GII.Pe_GII.4_Araguaina nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MN308005 VERSION MN308005.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7403) 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 7403) 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..7403 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="074_GII.Pe_GII.4_Araguaina" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Brazil" /collection_date="03-Jan-2011" /note="genotype: GII.Pe_GII.4" gene <1..4994 /gene="ORF1" CDS <1..4994 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QED42403.1" /translation="RALGARPKQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVV SYSAKDGVSGLPELTTVRQPEETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYH YGLYVERGLILGVHKPPAAISLAKVELAPLSLFWRPVYTPQYLISPDTLRRLHCESFP YTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVA NIFLCTLSSLFTRPIKDIIGKLKPLNILNILATCDWTFAGIVESLILLAELFGVFRTP PDVSAMIAPLLGDYELQGPEDLAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRA CKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKD SLATYMRTLDLEEEKARKLSTKSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPR AVVVMISGRPGIGKTHLARELAKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWD DYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVN FEACSRRIDFLVYAEAPEVEKAKRDFPGQHDMWKNAFSPDFSHIKLSLATQGGFDKNG NTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQGPALTTFNFDRNQILAFRQLAAE NKYGLMDTMKVGKQLKDVKTMSDLKQALKNIAIKKCQIVYDGGTYTLEADGKGSVKVD KVQSATVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNI QNLWSKPQVEDTEEMASKDGCLKPKDDEEFVVSSDDIKTEGKKGKNKSHRTPHHWAFS SKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYSSMEVAIARATEEDFCEEEEAKI RQRIFRPTRKQRKEERASFGLVTGSEIRKKNPEDFKPKGKLWADDDRSVDYNEKLNFE APPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPHGAKEFFGVPIKQIQIHKLGEFCRL RFPKPIRTGVTGMILEEGAPEGTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGG QMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGS EGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDP RVKGGPSLQQVMTDHLKPFTEPRGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQA CASLDKTTSSGHPHPMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPIYTGALKD ELVKTDKVYGKVKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDG PIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPS VMDVGDFQISISEGLPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFY GDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDP AGWFGKLEQSSILRQMYWTRGPNHADPFETMIPHSLRPIQLMSLLGEAALHGPAFYSK LSKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLNMWEGDRNLAPSFVNEDGVE" mat_peptide <1..881 /gene="ORF1" /product="p48" mat_peptide 882..1979 /gene="ORF1" /product="NTPase" mat_peptide 1980..2516 /gene="ORF1" /product="p22" mat_peptide 2517..2918 /gene="ORF1" /product="VPg" mat_peptide 2919..3461 /gene="ORF1" /product="Pro" mat_peptide 3462..4991 /gene="ORF1" /product="RdRp" gene 4975..6597 /gene="ORF2" CDS 4975..6597 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QED42404.1" /translation="MKMASSDANPSDGSAANLVPEINNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIVVDVKQLEPVLIPLPD VRNNFYHYNQSNDHTIRLIAMLYTSLRPNNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVERMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTPDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGKHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV" gene 6597..7403 /gene="ORF3" CDS 6597..7403 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QED42405.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPEPSGALPGRANLRDAVPARGSSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 agcgggccct cggggcgcgg cctaaacagc cgcccccgaa ggaaatacca cccagacccc 61 cgcgaccacc cacaccagaa ttggtcaaaa agatccctcc tcccccaccc aacggggagg 121 atgaactagt ggtctcttac agcgccaaag atggcgtttc cggactgcct gagctcacca 181 ctgtcagaca accggaagaa accaacacgg cgttcagtgt ccccccactc aaccaaaggg 241 agagcaggga cgccaaggag ccactaactg gaacaattat tgaaatgtgg gatggagaaa 301 tctaccatta cggcctgtac gtggaacggg gtcttatact tggtgtgcac aagccaccgg 361 cagccattag ccttgccaag gtcgagctag caccgctctc tttgttctgg agacctgtat 421 acacccccca gtatctcatc tctccggaca ctcttaggag attgcattgt gagtcattcc 481 cctacactgc atttgacaac aattgctacg ccttttgttg ttgggtatta gacctaaacg 541 actcatggct aagcaggaga atgattcaga gaacaacagg tttcttcagg ccgtaccagg 601 attggaacag gaaacccctc cccactatgg atgattccaa attaaagaag gtagccaaca 661 tattcttgtg cactttgtct tcactattca ccagacccat taaggacata atagggaagt 721 tgaaacctct taacatcctt aacattctgg ctacatgtga ttggaccttc gcaggcatag 781 tggaatcttt aatactctta gcagaactct ttggagtttt ccggacaccc ccagatgtgt 841 ctgcgatgat cgcccccttg ctaggtgatt atgaactgca aggacctgag gaccttgcag 901 tggagctggt cccaatagtg atggggggga taggtttggt gctaggattt accaaagaga 961 aaattggaaa gatgctatca tccgctgcat ccactttaag agcttgtaaa gaccttggtg 1021 catacggatt ggaaatctta aaattggtca tgaagtggtt cttcccaaag aaagaggagg 1081 caaatgaact ggctatggtg agatccatcg aggacgcagt gctagacctt gaggcaattg 1141 aaaacaacca catgaccacc ctactcaaag acaaagacag cttggcaacc tacatgagaa 1201 cccttgacct tgaggaggag aaagctagaa aactctcaac caaatccgcc tcacccgata 1261 ttgtgggcac aatcaactct cttctggcaa gaatcgctgc tgcacgctcc ctagtgcatc 1321 gggcgaaaga agagctctcc agcaggccga gagctgtcgt tgtgatgata tcgggaagac 1381 cagggatagg gaaaactcat cttgccaggg agctggccaa gaagatcgcg gcctccctca 1441 caggggacca gcgtgtgggt cttatcccac gcaatggtgt cgaccactgg gacgcataca 1501 agggcgaaag agttgtccta tgggacgact atggaatgag caaccccatc catgacgccc 1561 tcaggttgca ggagcttgct gacacttgcc ccctcacgct aaattgtgac agaattgaga 1621 acaaagggaa agtctttgac agtgatgcca taattatcac caccaatctg gccaacccag 1681 caccactgga ttatgtcaac tttgaagcgt gctcgagacg tattgacttc ctcgtgtacg 1741 cagaggcccc tgaggtggag aaggcaaagc gcgacttccc aggtcaacat gacatgtgga 1801 agaacgcttt cagtcctgac ttctcacaca taaagctgtc gttggctaca cagggtggtt 1861 ttgacaagaa cggcaacacc ccgcatggaa aaggggtcat gaagaccctc accactggct 1921 ccctcatcgc ccgagcatca gggttactcc atgagaggct agatgaatat gaactgcaag 1981 gcccagccct caccaccttc aactttgacc gcaaccagat acttgctttt agacagcttg 2041 ctgctgaaaa caagtatggg ctgatggaca caatgaaagt tggaaaacag ctcaaggatg 2101 tcaagaccat gtcagacctc aaacaagcac tcaagaacat cgcgatcaag aagtgccaga 2161 tagtgtacga tggtggcacc tacacacttg aggctgatgg caagggtagt gtgaaagttg 2221 acaaagtgca gagtgccact gtgcagacca acaatgaact agccggtgcc ctacaccacc 2281 taaggtgcgc tagaatcaga tactatgtta agtgcgtcca ggaggcactg tattccatca 2341 tccaaatcgc tggggctgca ttcgtcacca cgcgcatcgc taagcgcatg aatatacaga 2401 atctctggtc caagccacag gtggaagaca cagaagagat ggccagcaaa gatggttgcc 2461 taaaacccaa agatgatgaa gaatttgtcg tctcatccga cgacatcaaa actgagggca 2521 agaaagggaa gaacaagtcc catcgtactc ctcatcactg ggccttttca agtaaagggc 2581 tcagtgatga ggagtacgat gagtacaaga gaatcagaga agaaaggaat ggtaagtact 2641 ccatagaaga gtaccttcag gacagagaca ggtactcttc tatggaggtg gccattgcca 2701 gggcaaccga agaggacttc tgtgaagaag aagaggccaa aatccggcag agaattttta 2761 gaccaacaag gaaacaacgc aaagaagaga gggcctcttt cggcttggtc acaggctctg 2821 aaatcaggaa gaaaaaccca gaagacttca aacccaaggg aaagctgtgg gctgatgatg 2881 acagaagtgt tgactacaat gagaaactca actttgaggc cccaccaagc atctggtcgc 2941 ggatagtcaa ctttggttca ggctggggct tctgggtctc ccccagtctg tttataacat 3001 caacccatgt cataccccac ggtgcaaaag agttcttcgg agtccctatc aagcaaatcc 3061 agatacacaa attgggtgaa ttctgccggt tgagattccc aaagccaatc agaactggtg 3121 tgacgggcat gattctagaa gaaggtgcgc ccgagggaac cgtggccaca ctgctcatca 3181 agaggccaac tggagagctc atgcctctgg cagccagaat gggaacccat gcaaccatga 3241 aaattcaggg gcgcacagtt ggagggcaaa tgggtatgct cctgacagga tccaacgcca 3301 agagtatgga cctaggcaca acaccaggcg actgcggctg cccctacatc tacaagaggg 3361 ggaatgacta cgtggtcata ggagtccata cggccgctgc ccgtggagga aacactgtca 3421 tatgtgccac tcaggggagt gagggagaag ccacacttga aggaggtgac agtaaaggga 3481 catactgtgg cgcaccaatc ctgggcccag ggagcgctcc gaagctcagt accaagacta 3541 agttttggag atcatccaca acaccactcc cacctggcac ctacgaacca gcctacctcg 3601 gtggcaaaga ccctagagtc aaaggtggcc cttcattgca acaagttatg acggaccacc 3661 tgaagccatt cacagaaccc agaggcaaac caccaagacc aaatgttttg gaggctgcca 3721 agaaaaccat catcaatgtc cttgagcaaa caattgatcc acctcaaaaa tggtcatttg 3781 cgcaagcttg cgcatccctt gacaaaacca cctccagcgg ccacccacac cccatgcgga 3841 aaaacgattg ttggaatggg gagtccttca cgggaaaatt ggctgatcaa gcctccaagg 3901 ccaatctaat gtttgaggag ggaaagaaca tgactccaat ctacacaggt gcacttaaag 3961 atgagttggt aaagaccgat aaagtttatg gtaaggtcaa gaagaggctt ctgtggggtt 4021 cagatctggc gaccatgata cggtgcgccc gagcttttgg aggccttatg gatgaactca 4081 aggcacactg tgtcacactt cctgtcagag ttggtatgaa catgaatgag gatggcccca 4141 tcatctttga gaagcactcc agatatagat atcactatga tgctgactat tcccggtggg 4201 actcaacaca acaaagggat gtactagcag cagcactaga aatcatggtt aagttctctc 4261 cagaaccaca cctggcccag gtagttgcag aagacctcct ttcccctagc gtaatggatg 4321 taggtgactt tcaaatatca ataagtgagg gtcttccctc tggggtacct tgtacctccc 4381 agtggaattc catcgcccac tggctcctca ctctgtgtgc actctctgaa gtcacggacc 4441 tgtcccctga tatcattcag gccaactccc ttttctcctt ctatggtgat gatgagattg 4501 taagcacaga tataaagttg gacccagaga agctgacagc aaaactcaag gagtacgggc 4561 tgaaaccaac ccgccccgac aaaactgaag gaccccttgt tatctctgaa gacctggatg 4621 gcctgacatt ccttcggaga actgtgaccc gtgatccagc tggctggttt ggaaaattgg 4681 agcaaagttc aattctcaga caaatgtact ggaccagggg tcccaaccat gcagatccat 4741 ttgaaacaat gataccacac tccttaagac ccatacaatt gatgtccttg ctgggcgagg 4801 ctgcactcca cggcccggca ttttacagca aacttagcaa attagtcatt gcagagttga 4861 aggaaggtgg catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat 4921 tctcagatct gaacatgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag 4981 atggcgtcga gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagagatc 5041 aacaatgagg ttatggctct ggagcccgtt gttggtgccg ccattgcggc acctgtagcg 5101 ggccaacaaa atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga 5161 gagtttacag tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttgggc 5221 cctgacctaa atccctacct atcccatttg gccagaatgt acaatggtta tgcaggtggt 5281 tttgaagtgc aggtaattct cgcggggaac gcgttcaccg ccgggaagat catatttgca 5341 gcagtcccac caaattttcc aactgaaggc ttgagcccca gccaggtcac tatgttcccc 5401 catatagtag tagatgttaa gcaactagaa cctgtgttga ttcccttacc cgatgttagg 5461 aataatttct atcattacaa tcaatcaaat gatcacacta ttaggttgat agcaatgttg 5521 tatacatcac ttaggcctaa taatgcgggg gatgatgtct tcacagtttc ttgccgagtt 5581 ctcacgagac catcccccga ttttgatttc atatttctag tgccacccac agttgagtca 5641 agaactaaac cattctctgt cccagtttta actgttgaga gaatgaccaa ttcaagattc 5701 cccattcctt tggaaaagtt gttcacgggt cccagcagtg cctttgttgt ccaaccacaa 5761 aacggcaggt gcacgcctga tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac 5821 atctgtacct tcagaggaga tgtcacccat atcacaggta gtcgtaacta cacaatgaat 5881 ttggcgtctc aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctagga 5941 actccagact ttgtggggaa gattcaaggt gtactcaccc aaaccacaag gacagatggc 6001 tcaacacgcg gtcacaaagc cacagtgtac actgggagcg ccgacttttc tccaaaactg 6061 ggtagagttc aatttgaaac tgacacagac catgattttg aagctaacca aaacacaaag 6121 ttcaccccag ttggtgtcat ccaagatggt agcaccaccc accgaaatga accccaacag 6181 tgggtgctcc caagctactc aggcagaaat actcccaatg tgcatctggc ccccgctgta 6241 gcccccactt ttccgggtga gcaacttctc ttctttagat ccaccatgcc cggatgcagc 6301 gggtacccca acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac 6361 caagaggcag ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca 6421 ggtagggttt tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact 6481 ggcaaacatg atttggttat cccccccaat ggttatttta ggtttgattc ctgggtcaac 6541 cagttttaca cgcttgcccc catgggaaat ggaacggggc gtagacgtgc agtataatgg 6601 ctggagcttt ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta 6661 tcaatgctgg ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc 6721 aacaagcatc cttccaattt agcagcaatc tacaacaggc ttcctttcag catgacaaag 6781 agatgctcca agcacaaatt gaggccacca aaaagctaca acaggaaatg atgaaagtta 6841 agcaggcaat gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatca 6901 acgcccccat gacaaaagct ttggactgga gcgggacaag gtactgggct cccgatgcta 6961 ggactacaac atacaatgca ggccgcttct ccacccccga accatcgggg gcactgccag 7021 gaagagctaa tctcagggat gctgtccctg ctcggggttc ctccagtaag tcttctaatt 7081 cttctactgc tacttctgtg tactcaaatc aaactacttc aacgagactt ggttctacag 7141 ctggttctgg taccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg 7201 aggatcaaag taggaatttg tcacctttca tgaggggggc ccacaacata tcgtttgtca 7261 ccccaccatc tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagaggttt 7321 tggactcctg gactggcgct ttcaacacgc gcaggcagcc actcttcgct cacattcgta 7381 agcgagggga gtcacgggcg taa //