Typing tool
|
Complete norovirus genomes
MW305654 | GII.17 | ||
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GII.P13 |
ORF1: 1..5078 ORF2: 5059..6684 ORF3: 6684..7463LOCUS MW305654 7512 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate 412SR nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305654 VERSION MW305654.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7512) AUTHORS 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7512) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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..7512 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="412SR" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Paraguay" /collection_date="27-Jan-2004" /note="genotype: GII.17[GII.P13]" gene <1..5078 /gene="ORF1" CDS <1..5078 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59298.1" /translation="VAGKNNNNDNAKSSSDGLFSNMTVTFKKALGARPKQPPPGETKQ VSKPPRPPTPELVKRIPPPPPNGEDEPKVVYKVGEGVSGLPDLTTVTQPEAQCTAYSV PPLSQREAGDAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISIAKIELTP LSLYWRVVYTPQYLIAPDTLKNLNGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ RTTGFFRPYQEWNRKPLPTMDEPKIKKVANAVLCSLSSLFTRPIKDIIGKLKPMNILN ILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVELVPV VMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANEL AMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIV GTINSLLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKKVATTL AGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCDR IENKGKVFDSDAIIITTNLSNPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRDFPGQ PDMWKDHYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKSLTVGSLIARASGLLHERM DEFELQGPGLSTFNFDRNKVAAFRQLAAENKYGMLDTLRVGNQLKGVKTMDELKRAIN NITIKKCQIVYNGCTYTMESDGHGKVLVDKVQNTTVQTNNELAGALHHLRSARIRYYV KCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPAEDNDESEDKGGCPKPRDEDE FTVDSKDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL QDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLVTGSEIRKR NPDDFKPRGKLWADDDRSVDYNEKISFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTH VIPKGITEAFGVPISQIQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGTVATILVK RPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYK RGNDFVVIGVHTAAARGGNTVICATQGNEGEATLEGGDNKGTYCGAPILGPGNAPKLS TKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNPS VLESAKRTIINVLEQTIDPPQKWTYAQACASLDKTTSSGYPHHVRKNDYWSGETFTGK LADQASKANLMYEEGKHMTPVYTAALKDELVKTDKIYSKIKKRLLWGSDLSTMIRCAR AFGGLMDELKAHCITLPVRVGMNMNEDGPIIFEKHSRYTYHYDADYSRWDSTQQRAVL 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="QPJ59299.1" /translation="MKMASNDAAPSNDGAAGLVPEINTETLPLEPVAGAALAAAVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEVLLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYNNRPSERMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTISELTNSRFPAPIDSLFTAQNNNLNVQCQNGRCTLDGELQGTT QLLPTGICAFRGKISADVQSSHQDRWHMQLTNLNGTPFDPTDDVPAPLGTPDFTGLLF GVASQRNVGGAGNNTTRAHEVVIATTSTQFVPKLGSVNFGSESDDFQVGPPTKFTPVG IKVETGHPFRQWDLPNYSGALTLNMNLAPPVAPNFPGEQLLFFRSNVPCAGGVSEGII DCLLPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRTGYITVSHSGDYPL 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="QPJ59300.1" /translation="MAGAFIAGLAGDMLTSAVGSLANAGANAITQKIDFENNKQLQTA SFQHDKDMLRAQVDATKQLQAEMIAIKQGILTAGGFSPADAARGAVGAPMTKVLDWSG TRYWAPNSTKTTSYSGQFTSTPVHTPNFNNKPRPPVKTQPSPSSSGSVYSLSTQSTPL PGSSSSGSSVSSVSTQSTKLSSVSSMSRTADWVNQQRSLSPYMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV" ORIGIN 1 ccgttgctgg caaaaacaac aacaacgaca acgcaaaatc ttcaagtgac ggcttgtttt 61 ctaatatgac tgtcactttc aagaaagccc tcggggcgcg gcctaaacag ccgcccccgg 121 gagaaacaaa gcaagtctct aaaccgccaa gaccgccgac accggaattg gtgaagagaa 181 tacccccacc cccacccaat ggcgaagacg agccaaaagt ggtgtacaag gtgggagaag 241 gtgtgtccgg gctgcctgac ttaacaactg tcacgcagcc tgaggcgcaa tgtacagcct 301 atagcgtccc cccactcagt caaagagagg cgggcgacgc gaaggaacca ttacctggct 361 ccatcttgga gatgtgggat ggtgagatct accactatgg gctgtacgtg gagcgtggcc 421 acgtgcttgg ggtgcacaaa ccacccgctg cgataagcat cgctaaaatt gaattaacac 481 cattgtccct ttattggagg gtggtttaca ccccccagta tttgatagct ccagacactt 541 tgaagaacct gaatggagaa tcattcccat acacggcttt tgacaacaac tgctatgctt 601 tttgctgctg ggttctggac cttaatgatt cttggctcag caggagaatg atccaaagaa 661 ctactggttt cttcaggcct taccaggagt ggaacagaaa gcccttacca accatggacg 721 agcccaagat caagaaagtt gcaaacgccg tcctatgttc tctctcttcg ctctttacca 781 gacccattaa agacatcatc ggtaagctaa aaccgatgaa catcctcaac atactggcaa 841 cttgtgactg gacctttgca ggtatagtgg aatcccttat tcttcttgct gaactttttg 901 gggtgttctg gacaccccca gatgtgtctg ctatgatcgc tcccttgctc ggtgattacg 961 agatgcaggg ccctgaggat cttgccgtgg agctcgtgcc cgtggtaatg ggagggatag 1021 gtctggtgtt gggattcacc aaggaaaaga tcggcaagat gctttcatca gctgcgtcta 1081 cactcagggc ttgcaaagac ctaggggctt atgggttgga aatactcaaa ttagttatga 1141 agtggttctt tcccaagaaa gaagaggcca acgagctggc catggtaagg gccattgagg 1201 atgctgtgtt agatctagag gcaatagaaa acaaccatat gaccactctc ctcaaggata 1261 aagacagtct tgccacatac atgagaaccc ttgacttgga ggaagagaaa gcaagaaagc 1321 tctccaccaa atctgcatca ccagacatcg tgggcacaat aaactcactg ttggcaagaa 1381 ttgcagcagc ccggtcacta gtccacaaag caaaagaaga actgtcaagc agacaaagac 1441 ctgttgtcgt catgatatct ggcaggccgg gtattgggaa aactcacctt gccagagagc 1501 tagccaaaaa ggttgcaaca acactagcag gtgaccaaag gattggcctg gtacccagga 1561 atggtgtgga tcattgggac gcctacaaag gagaaagagt ggtgctgtgg gatgactatg 1621 gtatgagcaa ccctatacag gatgccctaa gacttcaaga actggctgac acctgccctc 1681 taacacttaa ctgcgacaga attgaaaata agggaaaggt gtttgacagc gatgccataa 1741 tcataacaac caacctttca aatccagcac ccttagacta tgtcaacttt gaggcctgtt 1801 ccaggcgcat agacttctta gtatatgcag atgcaccaga tatcgaaaag gccaagcgcg 1861 atttccctgg ccaaccagac atgtggaaag accattacag atcagacttc tcacacatca 1921 agcttcaact ggccccacag ggcggttttg acaagaacgg caacacccca catggtaagg 1981 gtgtgatgaa gtccctgact gttgggtcac tgatcgccag agcctctggt ctgctccatg 2041 aaagaatgga cgaatttgag ctacagggtc ctggcctgtc aactttcaac tttgaccgta 2101 ataaggtcgc tgccttcaga cagctggcag ctgaaaataa gtatggcatg ttggacacac 2161 tgagagtagg aaaccagcta aagggtgtca aaaccatgga tgagctgaaa cgagccatca 2221 acaacatcac catcaaaaag tgccagatag tatataatgg atgcacctac actatggaat 2281 ctgatggaca tggcaaagtg ttagttgaca aagtgcaaaa cacaacagtt caaaccaaca 2341 acgagctcgc aggggccctt caccacctca ggtctgcaag aataagatat tatgtcaagt 2401 gcttccaaga ggcaatctac tccctactcc aaattgctgg tgcagctttt gtcacctcac 2461 gcatagtgag gcgtatgaac atctcaaacc tatggtcgaa accacctgct gaagacaacg 2521 atgaatcaga ggacaaagga gggtgtccca aacccagaga tgaggatgag ttcaccgttg 2581 attccaaaga catcaaagtg gaaggaaaga aaggtaaaaa taaatctggg agaggaaaga 2641 aacacacagc tttctccagc aagggcctca gtgatgaaga gtatgatgag tacaaaagaa 2701 tcagagaaga aagaaatggc aagtactcga tagaggagta cctccaggat agggacaggt 2761 attatgagga acttgccatt gctaaagcca ctgaggaaga cttttgtgaa gaggaggagg 2821 tcaaaatccg ccagagaatc ttccgtccta ccagaaagca acggaaggag gagagagcca 2881 ctctcggact cgtcacgggg tcagaaatca ggaagaggaa cccagatgac ttcaaaccaa 2941 gaggaaagct gtgggctgat gatgacagga gtgtggatta taatgagaaa ataagttttg 3001 aagcaccacc aagcatctgg tcaagaatag tcaattttgg ttcgggctgg gggttctggg 3061 tgtccccaag ccttttcata acttcaaccc acgtgatacc aaaggggatc acggaggctt 3121 ttggtgtgcc catcagtcaa atacaaatcc acaagtcagg agagttctgt cgcctgaggt 3181 tcccaaaacc catcaggacg gatgtgagtg ggatgatctt ggaagagggt gcccctgagg 3241 gaaccgtcgc aaccatactt gtcaagcggc cgacagggga gctaatgccc ttggctgcca 3301 gaatgggaac ccatgccaca atgaagatcc aagggagaat ggtgggcggc cagatgggta 3361 tgttgctcac cggctcaaat gccaagagta tggaccttgg tacaacacca ggtgattgtg 3421 gatgccctta catatacaag agaggcaacg attttgtggt catcggcgtg cacaccgcag 3481 cagcacgtgg gggtaataca gttatatgtg ctacacaagg gaatgaaggt gaagccactc 3541 ttgaaggagg ggacaacaag ggcacttact gtggagcccc cattctggga cctggcaacg 3601 caccaaaatt gagcaccaaa acaaaattct ggcgatcttc cactgcacca ctcccaccag 3661 gtacctatga gccagcgtac ctaggtggaa aagacccacg agtgaaggga ggtccgtcct 3721 tgcaacaggt tatgagagac cagctcaagc ctttcactga acccagaggg aagccaccaa 3781 acccaagtgt tcttgaatcg gcaaaaagaa ccatcatcaa tgtcttggag caaaccattg 3841 atccacccca aaagtggaca tatgcccagg catgtgcatc tcttgacaaa acaacctcca 3901 gcggttaccc acatcatgtc cgcaagaatg actactggag cggtgagaca ttcacaggca 3961 aactggcgga tcaagcttca aaggcaaatc ttatgtatga ggaaggaaaa cacatgacac 4021 cggtgtacac cgcggctctc aaggatgaac tggttaaaac tgacaaaatc tatagtaaga 4081 tcaaaaagag actgttatgg ggttctgacc tctccaccat gattcgatgt gctagggcat 4141 tcggtggcct catggatgaa ctcaaagcac actgcatcac cctccctgtc agggttggca 4201 tgaacatgaa tgaagatgga ccaataatat ttgagaaaca ctccagatac acttaccatt 4261 atgatgcaga ctactcccgt tgggattcta cacaacaacg ggcagtgctt gcagcagcac 4321 ttgaaattat ggtgagattt tctgctgagc cacaattggc acagatagtg gctgaggacc 4381 tgctttcacc aagtgtggtc gatgtgggtg acttcaaaat tacaatcaat gagggccttc 4441 catccggcgt accttgcacg tcccagtgga attcaatctc ccactggttg ctcacattgt 4501 gtgctttatc tgaagtaaca ggactaggcc ctgacatcat acaggccaac tctatgtact 4561 ctttctatgg tgatgatgaa attgtgagca ctgacataaa attggaccca gaaaaattaa 4621 ctgcaaaact caaagagtat ggtctcaagc ccactcgtcc tgacaaaact gaggggccac 4681 tggtgattag tgaagatttg aacgggttga cattccttcg ccgcactgtg acccgtgatc 4741 cagcaggctg gtttggaaaa ctagatcaaa gctccatcct caggcaattg tattggacaa 4801 aaggacccaa ccacgacgac cccagtgaaa ccatgatacc acatgcacag aggcccgtac 4861 aactcatggc actactagga gaatcctccc tacatggacc ctcattctac agcaaagtta 4921 gtaaattggt tatatctgaa cttaaggagg gaggaatgga tttttatgtg cccagacaag 4981 agtcaatgtt cagatggatg aggttctcag atctaagcac atgggagggc gatcgcaatc 5041 tggctcccag ttttgtgaat gaagatggcg tcgaatgacg ccgctccatc taatgatggt 5101 gctgcgggcc tcgtcccaga gatcaacacc gagacccttc ccctggaacc agtggctggt 5161 gcggcccttg ctgcggctgt cactggtcaa aataatataa ttgatccctg gattagaaca 5221 aattttgtac aagcacccaa tggggagttc actgtctcac ccaggaattc cccaggagaa 5281 gttctcctaa atctagaatt aggtcctgat ttaaacccct atttggcaca cttatctaga 5341 atgtacaatg ggtatgctgg tggagtggag gtccaggttc tcctagcagg gaacgcgttc 5401 accgctggaa agatcctctt cgctgccgta ccgccaaatt tcccagttga attcttaagt 5461 cctgcccaaa ttactatgct cccacatttg atagttgatg ttaggaccct tgaaccaatt 5521 atgatacccc tccccgatgt gagaaacacc ttcttccatt acaacaatag gccctctgag 5581 cgcatgcgtt tagtggccat gttgtacaca cccctgagat ccaacggttc aggtgatgat 5641 gtcttcacag tctcatgcag agtactaact aggcctactc cagattttga gtttacttac 5701 ctagttccac cctcagtgga gtctaagaca aaacctttct cccttcccat cttaaccatt 5761 tctgagttaa ctaattcaag gtttccagca cccattgact cgttgtttac tgcccaaaac 5821 aacaatctca atgtccaatg ccagaatggt cggtgcacac tggatggtga gttgcaggga 5881 actacccagc tgctcccaac tggaatatgt gcattcagag ggaaaatatc ggcagatgtg 5941 caaagcagtc accaagacag gtggcacatg cagttgacaa atctcaatgg aaccccattt 6001 gacccaacag atgatgtccc agccccgctt ggcacccccg atttcacggg tctgctgttt 6061 ggagttgcaa gtcaaagaaa tgttggtgga gcaggcaaca acactaccag ggcccacgag 6121 gtagtgatag caacaactag cacacaattt gtaccaaaat tgggctctgt taattttgga 6181 agtgaaagtg atgattttca agtgggccca ccaaccaaat tcacaccagt tggaatcaaa 6241 gttgagaccg ggcatccgtt tagacaatgg gacctaccta actattctgg agcattgacc 6301 ctcaatatga atcttgcccc acctgttgcc ccaaacttcc caggagagca gctgctcttc 6361 tttagatcaa atgttccttg tgctggtggt gtcagtgagg gtatcattga ctgcctgttg 6421 cctcaagagt ggatacaaca tttctaccag gaatccgctc catcccaatc agatgtggca 6481 ctgatcagat atgtcaaccc tgatacgggc cgcactctct ttgaggcaaa acttcacagg 6541 actggttata ttactgtttc tcactctggt gactatcctc tagttgttcc ttccaatggc 6601 tatttcagat ttgattcttg ggtaaaccaa ttttactcac tcgcccccat gggaactggt 6661 aatgggcgca ggagagtgca gtaatggcag gagcttttat agcaggtctc gcaggtgaca 6721 tgctcacctc tgctgtaggc tcattggcga atgccggagc aaatgccata acccagaaaa 6781 ttgactttga aaacaataaa caacttcaaa cagcctcctt ccagcatgac aaggatatgc 6841 tccgcgcaca agtggatgca accaaacagc tgcaggcaga aatgattgct atcaagcaag 6901 ggatcttgac cgctggcggc ttctcccctg ctgacgcagc aagaggggct gtaggagcac 6961 ccatgaccaa ggtgcttgac tggtctggca cacgctattg ggcaccaaat tctaccaaaa 7021 caacaagtta ctctgggcag ttcacatcaa cgcctgtgca tacaccaaat tttaataaca 7081 agcccaggcc tcctgtcaaa acccagccct ctccttcttc ttctggtagt gtttatagtc 7141 tttcaactca atcaactcca ctccctggat cctcttcttc gggttcatct gtttcttctg 7201 tctcaacaca atcaacaaaa ttgagttcag tctcctctat gagtagaaca gcagattggg 7261 ttaatcaaca aaggagcctc agtccttata tgagcggggc ccttaatatt tcccatgtga 7321 cacctccgtc aagcagggct tcaagttcgg gaacagtctc aactgtgccc aaagaagttt 7381 tggactcctg gacatctgca tttaacacac gcagacagcc gctcttcgca cacctcagag 7441 tgagggggga gtcacgtgtt tagtgaaaag aattaattag ttttaattag gttaaattta 7501 attggatctt tt //