Typing tool
|
Complete norovirus genomes
MW305610 | GII.17 | ||
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GII.P13 |
ORF1: 1..5078 ORF2: 5059..6684 ORF3: 6684..7463LOCUS MW305610 7520 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate Arg4522 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305610 VERSION MW305610.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7520) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H., Green,K.Y. and Parra,G.I. TITLE Genome-wide analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7520) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H., Green,K.Y. and Parra,G.I. TITLE Direct Submission JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, MD 20993, USA COMMENT ##Assembly-Data-START## Assembly Method :: High-performance Integrated Virtual Environment (HIVE) v. 2 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7520 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Arg4522" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Argentina" /collection_date="2005" /note="genotype: GII.17[GII.P13]" gene <1..5078 /gene="ORF1" CDS <1..5078 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59166.1" /translation="VAGKNNNNDNAKSSSDGLFSNMSVTFKKALGARPKQPPPGETKQ ISKPPRPPTPELVKRIPPPPPNGEDEPKVVYKVGEGVSGLPDLTTVTQPDAQCTAYSV PPLSQREAGDAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISLAKIELTP LSLYWRVVYTPQYLIAPDTLKNLNGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ RTTGFFRPYQEWNRKPLPTMDEPKIKKVANAVLCALSSLFTRPIKDIIGKLKPMNILN ILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFEMQGPEDLAVELVPV VMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANEL AMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIV GTINSLLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKKVATTL AGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCDR IENKGKVFDSDAIIITTNLSNPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRDFPGQ PDMWKDHYRPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKSLTVGSLIARASGLLHERM DEFELQGPGLSTFNFDRNKVAAFRQLAAENKYGMLDTLRVGNQLKGVKTMDELKRAIN NITIKKCQIVYDGCTYTMESDGRGKVLVDKVQNTTVQTNNELSGALHHLRSARIRYYV KCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPAEDNDESEDKGGCPKPRDEDE FTVDSKDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL QDRDRYYEELAIAKATEEDFCEEEEAKIRQRIFRPTRKQRKEERATLGLVTGSEIRKR NPDDFKPRGKLWADDDRSVDYNEKISFEAPPSIWSRIVNFGSGWGFWVSSSLFITSTH VIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGTVATILVK RPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYK RGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGNAPKLS TKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNPS VLESAKRTIINVLEQTIDPPQKWTYAQACASLDKTTSSGYPHHVRKNDYWSGETFTGK LADQASKANLMYEEGKHMTPVYTAALKDELVKTDKIYGNIKKRLLWGSDLSTMIRCAR AFGGLMDELKAHCITLPVRVGMNMNEDGPIIFEKHSRYNYHYDADYSRWDSTQQRAVL AAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKITINEGLPSGVPCTSQWNSISH WLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTR PDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGPNHDDPSET MIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMFRWMRF SDLSTWEGDRNLAPSFVNEDGVE" mat_peptide <1..968 /gene="ORF1" /product="p48" mat_peptide 969..2066 /gene="ORF1" /product="NTPase" mat_peptide 2067..2603 /gene="ORF1" /product="p22" mat_peptide 2604..3002 /gene="ORF1" /product="VPg" mat_peptide 3003..3545 /gene="ORF1" /product="Pro" mat_peptide 3546..5075 /gene="ORF1" /product="RdRp" gene 5059..6684 /gene="ORF2" CDS 5059..6684 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59167.1" /translation="MKMASNDAAPSNDGAAGLVPEINTETLPLEPVAGAALAAAVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEVLLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYNNRPSERMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTISELTNSRFPAPIDSLFTAQNNNLNVQCQNGRCTLDGELQGTT QLLPTGICAFRGKISADVQNSHQDRWHMQLTNLNGTPFDPTDDVPAPLGTPDFTGLLF GVASQRNVGGTGNNTTRAHEVVIATTSTQFVPKLGSINFGSESDDFQVGPPTKFTPVG IKVETGHPFRQWDLPNYSGALTLNMNLAPPVAPNFPGEQLLFFRSNVPCAGGVSEGII DCLLPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRTGYITVAHSGDYPL VVPSNGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6684..7463 /gene="ORF3" CDS 6684..7463 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59168.1" /translation="MAGAFIAGLAGDMLTSAVGSLANAGANAITQKIDFENNKQLQTA SFQHDKDMLRAQVDATKQLQAEMIAIKQGILTAGGFSPADAARGAVGAPMTKVLDWSG TRYWAPNSTKTTSYSGQFTSTPVHTPNFNSKPRPPAKTQPSSSSSGSVYSLSTQSTLL PGPSSSGSSVSSVSTQSTKLSSVSSMSRTADWVNQQRSLSPYMSGALNISHVTPPSSR TSSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV" ORIGIN 1 ccgttgctgg caaaaacaac aacaacgaca acgcaaaatc ttcaagtgac ggattgtttt 61 ctaacatgtc tgtcactttt aagaaagccc tcggggcgcg gcctaaacag ccgcccccgg 121 gagaaacaaa gcaaatctct aaaccgccaa gaccgccgac accggaattg gtgaagagaa 181 tacccccacc cccacccaat ggcgaagacg agccaaaagt ggtgtacaag gtgggagaag 241 gtgtgtctgg gctgcctgac ttaacaactg tcacgcagcc tgatgcacaa tgtacagcct 301 atagcgtccc cccgctcagt caaagagagg cgggtgacgc gaaggaacca ttacctggct 361 ccatcttgga gatgtgggat ggtgagatct atcattatgg gctgtacgtg gagcgtggcc 421 acgtgcttgg ggtacacaaa ccacccgctg cgataagcct cgctaaaatt gagttaacac 481 cattgtctct ttattggagg gtggtttaca ccccccagta cttgatagct ccagacactt 541 tgaagaacct gaatggagaa tcattcccat acacggcttt tgacaacaac tgctatgctt 601 tttgctgctg ggttttggac ctcaatgatt cttggctcag caggagaatg atccaaagga 661 ccactggttt cttcaggcct taccaggagt ggaacagaaa gcccttacca accatggacg 721 agcccaagat caagaaagtt gcaaacgccg tcctatgtgc tctctcttca ctcttcacca 781 gacccattaa agacatcatc ggcaagctaa aaccaatgaa catccttaac atactggcaa 841 cttgtgactg gacctttgca ggcatagtgg aatcccttat tcttcttgct gaactctttg 901 gggtgttctg gacgccccca gatgtgtctg cgatgatcgc tcccttgctc ggtgattttg 961 aaatgcaggg ccctgaggat cttgccgtgg agctcgtgcc cgtggtaatg ggagggatag 1021 gtctggtgtt gggattcacc aaggaaaaga tcggcaagat gctttcatca gctgcatcca 1081 cactcagggc ttgcaaagat ctaggggctt atggattgga aatactcaaa ttagttatga 1141 aatggttctt tcctaagaaa gaagaggcca acgagctggc catggtaagg gccattgagg 1201 atgctgtgtt agacctggag gcaatagaaa acaaccatat gaccactctc ctcaaggaca 1261 aagacagtct tgccacatac atgagaaccc tcgacttgga ggaagagaaa gcaagaaagc 1321 tctccaccaa atctgcatca ccagacatcg tgggcacaat aaactcactg ttggcaagga 1381 ttgcagcagc tcggtcacta gtccacaaag caaaagaaga gctgtcaagc agacaaaggc 1441 ctgttgtcgt tatgatatct ggcaggccgg gcatagggaa aactcacctt gccagagagc 1501 tggccaagaa agttgcaaca acactggcag gtgaccaaag gattggcctg gtgcccagga 1561 atggtgtgga ccattgggac gcctacaaag gagaaagagt ggtgctgtgg gacgactatg 1621 gcatgagcaa ccccatacag gatgccctaa gactccaaga actggctgac acctgtcctc 1681 taacacttaa ctgtgacaga attgaaaaca agggaaaggt gtttgatagc gatgccataa 1741 taataacaac caacctctca aatccagcac ccttagacta tgttaacttt gaggcctgct 1801 ccaggcgcat agacttctta gtgtatgcag atgcaccaga tattgagaag gccaagcgag 1861 atttccctgg ccagccagac atgtggaaag accattacag accagacttc tcacacatca 1921 agctccaact ggccccacag ggcggttttg acaagaacgg caacacccca cacggtaagg 1981 gtgtgatgaa gtccttgact gttgggtcac tgatcgccag agcctctggc ctgctccatg 2041 aaagaatgga tgaatttgag ctacagggtc ctggtctgtc aactttcaac tttgaccgta 2101 acaaggtcgc tgcctttaga caactggcag ctgaaaataa gtatggcatg ttggacacac 2161 tgagagtggg aaaccagcta aagggtgtca aaaccatgga tgagctgaaa cgagccatca 2221 ataacatcac catcaaaaag tgccagatag tatatgatgg atgcacctac actatggaat 2281 ctgatggacg tggcaaagtg ttagttgaca aagtgcaaaa cacaacagtt caaaccaaca 2341 atgagctctc gggggccctg caccacctca ggtctgcaag aataagatac tatgtcaagt 2401 gcttccaaga ggcaatctac tccctactcc aaattgctgg tgcagctttt gtcacctcac 2461 gcatagtgag gcgcatgaac atctcaaacc tatggtcgaa gccacctgct gaagacaatg 2521 atgaatcaga ggacaaagga gggtgtccca aacccagaga tgaggatgag ttcaccgttg 2581 attccaaaga catcaaagtg gaaggaaaga aaggcaagaa caaatctggg agaggaaaga 2641 aacacacagc tttctccagc aagggcctca gtgatgaaga atatgatgag tacaaaagaa 2701 tcagagaaga aagaaatggc aagtactcga tagaagagta cctccaagat agggacaggt 2761 attatgagga acttgccatt gctaaagcca ctgaggaaga cttttgtgaa gaggaggagg 2821 ccaaaatccg ccagaggatc ttccgtccta ccaggaaaca acggaaggag gagagagcca 2881 ctctcggact cgtcacgggg tcagaaatca ggaagaggaa cccggatgac ttcaaaccaa 2941 gaggaaaact gtgggctgat gacgacagga gtgtggatta taatgagaaa ataagttttg 3001 aagcaccacc aagcatctgg tcaagaatag ttaattttgg ttcaggctgg gggttctggg 3061 tgtcctcaag cctttttata acctcaaccc acgtgatacc gaaggggatc acggaggctt 3121 ttggtgtgcc catcaatcaa atacaaattc acaagtcagg agagttctgt cgcctgaggt 3181 tcccaaaacc catcaggacg gatgtgagtg ggatgatctt ggaggaaggt gcccctgagg 3241 gaaccgtcgc aaccatcctt gtcaaacggc cgacagggga gttgatgccc ttggctgcta 3301 gaatgggaac ccatgccaca atgaagatcc aagggagaat ggtgggtggc cagatgggca 3361 tgttgctcac cggctcaaac gccaagagca tggacctcgg cacaacacca ggtgattgtg 3421 ggtgccctta catatacaag agaggcaacg actttgtggt catcggcgta cacaccgcag 3481 cagcacgcgg aggcaacaca gtcatatgtg ccacacaagg aagtgaaggt gaagccactc 3541 ttgaaggagg agacaacaag ggtacttact gtggagcccc tatcctgggt cctggcaacg 3601 caccaaaatt gagcaccaaa acaaaattct ggagatcttc caatgcacca ctcccaccag 3661 gtacctatga gccagcatac ctaggtggaa aagacccacg agtgaaggga ggtccgtcct 3721 tgcaacaagt catgagagac cagctcaagc ctttcactga acccagaggg aaaccaccaa 3781 acccaagtgt tctggaatcg gcaaagagaa ccatcatcaa cgttttggaa caaactattg 3841 atccacccca aaagtggaca tatgcccagg catgtgcatc tcttgacaaa acaacttcca 3901 gcggttaccc acatcatgtt cgcaagaatg actactggag tggtgagaca ttcacaggca 3961 aactggcaga tcaagcttca aaggcaaatc ttatgtatga ggaaggaaaa cacatgacac 4021 cggtgtacac cgcggccctc aaggatgaac tggttaaaac tgacaaaatc tatggtaata 4081 tcaagaagag gctactgtgg ggttctgacc tttccaccat gatccgatgt gctagggcat 4141 tcggtggcct catggatgaa ctcaaggcac actgcatcac ccttcctgtc agagttggca 4201 tgaacatgaa tgaagatgga ccaataatat ttgagaaaca ctccagatac aactaccatt 4261 atgatgcaga ctactcccgt tgggattcta cacaacaacg ggcggtgctt gcagcagcac 4321 ttgaaattat ggtgagattt tctgctgagc cacaattggc gcagatagtg gctgaggacc 4381 tgctttcacc aagtgtggtt gatgtgggtg atttcaaaat tacaatcaat gagggccttc 4441 catccggcgt gccttgcacg tcccagtgga actcaatctc ccactggttg ctcacattgt 4501 gtgccttatc tgaagtgaca ggactaggtc ctgacatcat acaggccaac tccatgtact 4561 ctttctatgg tgatgatgaa attgtgagca ctgacataaa attggaccca gaaaagttaa 4621 ctgcaaaact caaagaatat ggcctcaagc ccactcgtcc tgacaaaact gagggaccat 4681 tggtgattag tgaagacttg aacgggttga cattccttcg ccgcactgtg acccgtgatc 4741 cagcaggctg gtttggaaaa ctagatcaaa gctctatcct caggcaattg tattggacaa 4801 aaggacccaa ccatgacgac cccagtgaaa ccatgatacc acatgcacag aggcccgtac 4861 aactcatggc actactggga gaatcctccc tacacggacc ctcattttac agcaaagtta 4921 gtaaattggt tatatctgaa cttaaggagg gaggaatgga tttttatgtg cccagacaag 4981 agtcaatgtt cagatggatg aggttctcag atctaagcac atgggagggc gatcgcaatc 5041 tggctcccag ttttgtgaat gaagatggcg tcgaatgacg ctgctccatc taatgatggt 5101 gctgcgggcc tcgtcccaga gatcaacacc gagacccttc ccctggaacc agtggctggt 5161 gcagctcttg ctgcggctgt cactggtcaa aataatataa ttgatccctg gattagaaca 5221 aattttgtac aagcacccaa tggggagttc actgtttcac ctagaaattc cccaggagaa 5281 gtcctcctaa atttagaatt aggtcctgat ttaaatcctt atttggcaca cttatctaga 5341 atgtacaatg ggtatgctgg tggagtggag gtccaggttc tcctagcggg gaacgcgttc 5401 accgctggaa agatcctctt cgctgccgta ccgccaaatt tcccagttga attcttaagt 5461 cctgcccaaa tcactatgct cccacatttg atagttgacg tcaggaccct tgagccaatt 5521 atgatacccc tccccgacgt gagaaacacc ttcttccatt acaacaatag gccctctgag 5581 cgtatgcgtt tggtggccat gttgtacaca cccctgagat ccaacggttc aggtgatgat 5641 gtcttcacag tctcatgcag ggtgctaact agacccactc cagattttga atttacctac 5701 ctagttccac cctcagtaga gtctaagaca aagcctttct ctcttcccat cttaaccatt 5761 tctgaattga ctaattcaag gtttccagca cccattgatt cattgtttac tgcccaaaat 5821 aacaatctta atgtccaatg tcagaatggt cggtgcacac tagatggtga gttgcaggga 5881 accacccagc tgctcccaac tggaatatgt gccttcagag ggaaaatatc agcagatgtg 5941 caaaacagtc accaagacag gtggcacatg cagttgacaa atctcaatgg aaccccattt 6001 gacccaacag atgatgtccc agctccgctt ggcacccctg acttcacagg tctactgttt 6061 ggagttgcaa gtcaaagaaa cgttggtgga acaggtaaca acactaccag ggcccacgag 6121 gtagtgatag caacaactag cacacaattt gtaccaaaat tgggttctat taattttggg 6181 agtgaaagtg atgatttcca agtgggccca ccaaccaaat tcacaccagt tggaatcaaa 6241 gttgagaccg ggcatccttt cagacaatgg gacctaccta actattctgg agcactgacc 6301 ctcaacatga accttgcccc acctgttgcc ccaaacttcc caggtgagca gctgctcttc 6361 tttagatcaa atgttccttg tgctggtggt gtcagtgagg gtatcattga ctgcctactg 6421 cctcaagagt ggatacaaca tttctaccag gaatccgctc catctcaatc agatgtggca 6481 ctgatcagat atgtcaaccc tgacacgggc cgcactctct ttgaggcaaa actccacagg 6541 actggttaca ttactgttgc tcactctggt gactatcctc ttgttgttcc ttccaatggc 6601 tacttcagat ttgattcttg ggtaaatcaa ttttactcac tcgcccccat gggaactggg 6661 aatgggcgca ggagagtgca gtaatggcag gagcttttat agcaggtctt gcaggtgaca 6721 tgctcacctc tgctgtaggc tcactggcga atgccggagc aaatgccata acacagaaaa 6781 ttgactttga aaacaacaaa caacttcaaa cagcctcctt tcaacatgac aaagatatgc 6841 tccgcgcaca agtggatgca accaagcagc tgcaggcaga aatgattgcc atcaaacagg 6901 ggatcttgac cgctggcggc ttctcccctg ctgacgcagc aagaggggct gtaggggcac 6961 ccatgaccaa ggtgcttgac tggtctggca cacgctattg ggcaccaaat tctaccaaaa 7021 caacaagtta ttccgggcag ttcacatcaa cgcctgtgca cacaccaaat ttcaacagca 7081 aacccaggcc tcctgccaaa acccagcctt cttcttcttc ttctggtagt gtttatagtc 7141 tttcaactca atcaacttta ctccctggac cctcttcttc gggttcatct gtttcttctg 7201 tctcaacaca atcaacaaaa ttgagttcag tttcttctat gagtagaaca gcagattggg 7261 ttaatcaaca aaggagcctc agcccttaca tgagcggggc ccttaatatt tctcatgtga 7321 cacctccatc aagcaggact tcaagttcgg gaacagtctc aactgtgccc aaagaagttt 7381 tggactcctg gacatctgca ttcaatacac gcagacagcc gctcttcgca cacctcagag 7441 tgagggggga gtcacgtgtt tagtgaaaag aatcaattag ttttaattag gttaaatttt 7501 aaattttaat tggatctttt //