Typing tool
|
Complete norovirus genomes
MN447471 | GII.16 | ||
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GII.P16 |
ORF1: 5..5098 ORF2: 5079..6701 ORF3: 6701..7498LOCUS MN447471 7578 bp RNA linear VRL 17-SEP-2019 DEFINITION Norovirus GII isolate Hu/US/2008/GII.16[P16]/US0367, complete genome. ACCESSION MN447471 VERSION MN447471.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7578) AUTHORS Gregoricus,N., Ames,J., Montmayeur,A.M., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (12-SEP-2019) Division of Viral Diseases, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA 30329, USA COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. R10; SPAdes v. 3.6 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7578 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="US0367" /isolate="Hu/US/2008/GII.16[P16]/US0367" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="20-Oct-2008" /note="Amplicon sequencing: first 35 nt does represent primer sequence; genotype: GII.16[P16]" gene 5..5098 /gene="ORF1" CDS 5..5098 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QEP28117.1" /translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDNSQKPPRPPTPELVKRIPPPPPNGEEEPVIRYEVKSGISGLPELTTVPQPN VTNTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS MAKVEMTPLSLYWRVVYTPQYLISPDTLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDS WLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIGK IKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGEYELQGPED IAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRAIEDAVLDLEAIENNHMTALLKDKDSLATYMKTLDLEEEKARRLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREV ARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTC PLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKTM EELKQAIKNVSIKRCQIIYNGSTFDLESDGKGKVLVEKVKSTSVQTNNELAGALHHLR SARIRYYVKCVQEAVYSILQIAGAAFVTTRIARRMNIQELWSKPPLDQSEPEAKEEAP KLEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY SIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTG SEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSL FITSTHVIPAGITEAFGVPIKQVQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTV ATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCG CPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPG GAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRG RPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWNG ETFIGKLADQASKANLMYEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLST MVRCARAFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST QQRAVLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKISISEGLPSGVPCTSQ WNSITHWLLTLCALSEVTNLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLREY GLKPTRPDKTEGPLIISEDLDGLTFLRRTVSRDPAGWFGKLDQSSILRQMYWTRGPNH EDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPM FRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide 5..994 /gene="ORF1" /product="p48" mat_peptide 995..2092 /gene="ORF1" /product="NTPase" mat_peptide 2093..2623 /gene="ORF1" /product="p22" mat_peptide 2624..3022 /gene="ORF1" /product="VPg" mat_peptide 3023..3565 /gene="ORF1" /product="Pro" mat_peptide 3566..5095 /gene="ORF1" /product="RdRp" gene 5079..6701 /gene="ORF2" CDS 5079..6701 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QEP28118.1" /translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ NNVIDPWIRLNFVQAPNGEFTVSPRNSPGEILLNLELGPELNPYLAHLARMYNGYAGG VEVQVLLAGNAFTAGKLVFAAIPPHFPVDNLSPGQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQQSDQRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP TVESKTKPFSVPVLTLNELTNSRFPVPIDAMYTSPNDSIVVQPQNGRATIDGELLGTT QLIPSGICSFRGKITTHLSDDRHLWNIQVSNLNGTPFDPTDDVPAPLGMPDFSGQIFG VVSQRDTGTNPANRAHDAVLATYSAKYTPKLGSVQIGTWDTEDLLERQPVKFTPVGLN EIGQDKHFDQWVLPNYSGALGLNMHLAPAVSPLFPGERLLFFRSYIPLKGGHGDPFID CLVPQEWIQHFYQESAPAQSSVALLRYVNPDTGRTLFEAKLHKEGFITVSSTENRPVI VPPNGYFRFDSWVNQFYSLAPMGTGNGRRRMQ" gene 6701..7498 /gene="ORF3" CDS 6701..7498 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QEP28119.1" /translation="MAGAFIAGLAGDIVTNGIGSLVNAGANAINQKVDFENNKQLQQA SFNHDKEMLQAQIQATKQLQADMISIRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG TRHWAPGASRTTSFSGGFTNSTRARTVEPPKSSPPVQNTLISASRPSSTVSSSSTRST VVTSSSTPPSIRSSVTRSSPRSVSQSVSPVSSRTGDWVQNQNRMLEPYLRGSLQTAFV SPPSSKASSNGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRRRGESQA" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga 61 caaggaaaaa tcttcgggtg aaggcttatt tacgaatatg tcttccaccc taaagaaagc 121 cctcggggct cggcctaaac agcctgcccc gagggacaac tcacaaaagc ccccaagacc 181 acctacgccc gagttggtta agaggatacc ccctcccccg cctaatggcg aagaagaacc 241 agtcattagg tatgaggtta agagtggaat ctctggcctg cctgagctca cgacagttcc 301 ccaaccgaat gtgaccaata cggcattcag tgtcccaccg ctgagcttga gagaaaacag 361 ggaggccaag gaaccgttga ctggggcaat actagagatg tgggatggag agatatacca 421 ctatggtttg tacgtggaga aaggcttagt gttgggtgtg cacaaaccac ctgcagctat 481 aagtatggca aaggtggaaa tgacgccgct gtcattgtac tggcgtgtgg tgtacacccc 541 tcaatatctc atctcccctg atactctcaa gaggctcaac ggggaggcat tcccttacac 601 tgcctttgac aacaactgtt atgccttttg ctgctgggtg ttagatctta atgactcatg 661 gctcagcaga aggatggtgc agagaacaac aggcttcttc agaccctacc aagagtggaa 721 caggaaaccc ctacccacta tggatgactc aaagattaag aaggtggcaa acattttctt 781 atgttcattg tccacgctgt tcaccagacc tataaaagac atcataggaa aaatcaaacc 841 actaaatatc ttgaacattc tggcaacgtg tgactggacg ttcgccggaa ttgtagagtc 901 tctaatatta cttgctgaac tctttggagt tttctggaca cccccagatg tgtctgctat 961 gattgctccc ttacttggcg agtacgagct gcaagggcca gaagacatcg ccgttgagct 1021 cgtacctgta gtgatgggag ggattggttt ggtgctagga ttcaccaagg agaaaattgg 1081 caaaatgctg tcctcagcag catcaaccct tagggcttgc aaagaccttg gtgcttatgg 1141 tttagagata ctcaaactgg tcatgaaatg gttcttccca aagaaagaag aggccaatga 1201 actagccatg gtgagagcaa tagaggatgc tgtactagac ctcgaagcga tagaaaacaa 1261 tcacatgaca gctctgctga aagataagga cagccttgca acctacatga aaacactgga 1321 tctagaggaa gagaaagcca gaagattgtc cacaaaatct gcatcccctg acatagttgg 1381 aacaatcaat gccctgctgg ctcgaatagc ggcggctaga tcgctagtcc atagggccaa 1441 ggaggagcta tctagcagga tcaggccagt tgttgttatg atttctggca agccagggat 1501 aggcaagacc cacctagcca gggaggtggc gagaaaggtg gcatccactc tcacgggaga 1561 tcaaagagtc ggactcatac cgagaaacgg tgtggaccac tgggatgcat acaaaggtga 1621 gagggtcgtg ttgtgggacg actacggcat gagcaacccc atccatgatg ctctgcgcat 1681 acaggagttg gccgacacgt gtcccctcac cttaaattgt gacagaattg aaaataaggg 1741 aaaagttttt gatagtgaag tcataataat cacaacaaac cttgccaatc cagctcccct 1801 cgattatgtc aactttgagg cctgttccag aagaattgac ttcctggtgt acgccgaagc 1861 accagaagtg gaaaaagcaa aacgagactt ccctggtcag ccagatatgt ggaaggacgc 1921 cttcaaagca gacttttcgc atatcaagct acaacttgcg cctcagggcg gttttgacaa 1981 gaacggcaat accccacatg gtaaaggagt gatgaagacc ctcactactg gttctctgat 2041 tgcccgcgcg tcaggtttac tacatgagag gatggatgaa tttgaactcc agggccccac 2101 aatcaccact ttcaatttcg accgaaacag aatcaccgcc tttagacaat tggctgcaga 2161 aaacaagtat gggttggtgg acaccatgag ggttggcaat caattgaaag gggtgaaaac 2221 catggaagaa ctcaagcaag caattaagaa tgtgtccatc aagaggtgcc agattatcta 2281 taatggctcc acgttcgatc ttgagtctga tggtaagggc aaagttttag tggaaaaggt 2341 caaaagcacc tctgttcaga ccaacaacga gctggccgga gccctgcatc acctcagaag 2401 tgctcgaatt aggtattatg tcaaatgtgt gcaagaagca gtctactcca tcctgcaaat 2461 tgccggcgct gcgttcgtta ccacacgcat tgcacgccgc atgaacatac aagaactttg 2521 gtcaaagcca ccattagacc aaagtgaacc agaggctaaa gaagaggccc ccaagttaga 2581 agatgatgag ttcatcatat cctccaaaga catcaaggag gaaggaaaga agggcaaaaa 2641 caagactggc cgtggcaaga aacacacagc attctctagc aagggcttga gtgatgagga 2701 gtatgacgag tacaagagaa taagagaaga gagaaatggg aagtactcta tagaggagta 2761 tcttcaagac agagacaggt actatgagga gctcgccatc gccaaggcca cggaagaaga 2821 cttttgcgag gaagaagaaa ttaaaatccg ccagagaatc tttcgcccca ctagaaaaca 2881 aaggaaggaa gaaagggcca cgctaggact agtgactggt tcagaaatca gaaaaagaaa 2941 ccctgatgac ttcaaaccta aagggaaatt gtgggccgac gacaacagaa gtgttgacta 3001 caatgaaaaa ttggactttg aggccccccc aagcatatgg tctagaattg tgagctttgg 3061 ttccggttgg ggcttctggg tgtcaccaag tctgttcata acatcaactc atgtaatccc 3121 tgcgggcata acagaggcat ttggagtccc catcaaacaa gtccaagtcc acaaatcagg 3181 tgagttttgc cggttcaggt tcccaaaacc aattagacca gatgtgacag gaatgattct 3241 ggaagagggc gcgccagagg gcactgtggc aaccgtgcta atcaaacgcc ccaccggaga 3301 actcatgccc ctcgcagcca gaatgggaac acacgcgacc atgaaaattc agggccgcat 3361 ggttggcggg cagatgggta tgttgctcac tggttcaaat gctaagggta tggatttggg 3421 aacaactcct ggtgattgtg gttgcccgta catctacaaa aggggcaatg actatatagt 3481 cattggagtg cacacagcag cagcccgtgg tggaaatact gtcatctgcg ccacgcaggg 3541 aagtgagggt gaggcgactc tcgagggtgg agacgacaaa ggaacatact gtggggcacc 3601 cattctgggc cctggaggag caccaaaatt gagtaccaaa accaaattct ggaggtcatc 3661 aaacacgccc ctcccaccag ggacatatga gcccgcttac cttggtggtc gtgacccgcg 3721 tgtgaagggt gggccctctt tgcagcaagt tatgagagat cagttgaagc ccttcactga 3781 gcccaggggt agacctccaa gacctagtgt actggaggca gctaaacaaa ccatcatcaa 3841 cgtcctcgag caaaccttgg accccccaca aaagtggaca tacgcacagg cgtgtgcttc 3901 gcttgataag accacctcta gtgggcaccc ccatcacgcc cgaaagaatg aattctggaa 3961 tggtgagacc tttattggta agttggcaga ccaagcatca aaagcaaatt tgatgtatga 4021 ggaagggaaa cacatgacac cagtgtacac agcagccctc aaggacgagt tggtcaagac 4081 tgacaaaatc tatggtaaga tcaagaagag actgctttgg ggttctgact tgtccaccat 4141 ggtccgatgt gctagggcct ttggtggact catggatgag atgaaggcac actgcatatc 4201 actcccagtt cgagttggta tgaacatgaa tgaggatggc ccaataatat ttgagaagca 4261 ttccagatat aagtaccatt atgatgctga ttactcccgc tgggattcaa cacaacaaag 4321 ggctgttcta gcagcggcct tggagataat ggtcagattc tctgcagaac cacaactggc 4381 gcaaacagtc gctgaagatc tgctggcccc tagtgtggta gatgtagggg acttcaaaat 4441 ctcaataagt gaggggctcc cttctggtgt accatgcact tcccagtgga actccatcac 4501 acattggctg ctgactctct gtgctttgtc tgaagtcacc aacctgtccc ctgatatcgt 4561 gcaggcaaat tccatgttct cgttttacgg tgatgacgag attgtcagca ccgatataaa 4621 attagaccct gaaaagttaa ccaccaaatt gagagaatat ggtctgaaac caacccgccc 4681 agataaaact gagggacccc tgatcatcag cgaggatttg gacggactca ctttcctccg 4741 gaggacagtt tctcgtgacc cagctggctg gtttggaaag ctagatcaaa gttcaatact 4801 aagacagatg tattggacca gaggaccaaa ccatgaagac cccaatgaaa caatgatacc 4861 ccactctcaa agacccatac agctcatggc actgcttggc gaggcttccc tccatggacc 4921 ctctttctat agcaagatta gtaaattggt cataactgaa ctcaaagaag gtgggatgga 4981 cttttacgtg ccaaggcagg aacccatgtt caggtggatg aggttttctg acttgagcac 5041 gtgggagggc gatcgcaatc tggctcccag ttttgtgaat gaagatggcg tcgaatgacg 5101 ccgctccatc taatgatggt gcagccggtc tcgtaccaga ggtcaacaac gagacaatgg 5161 cactagagcc agttgcagga gcttcaattg ctgccccttt aactggtcaa aacaatgtaa 5221 tagacccctg gattagatta aattttgtac aagcccccaa tggtgagttc acggtttccc 5281 cccgaaactc gcctggtgaa attttgttaa atttggagtt agggcctgaa ttaaatccat 5341 acttagccca tttagcaagg atgtataatg gttatgcagg tggggttgag gtgcaggtac 5401 tgctggctgg aaatgcgttt acagcaggca aacttgtatt tgcagcaatc ccccctcatt 5461 ttccagtaga taatttgagc cctggccaga ttactatgtt cccccatgtg attattgatg 5521 ttagaacact tgaacctgtc ttgttaccat tacctgatgt tagaaataat ttctttcact 5581 ataatcaaca gagtgatcag cgcatgagac ttgttgctat gctttatacc cctcttagat 5641 ctaatggttc aggtgatgat gtcttcactg tgtcatgcag ggtcctaacc aggccatccc 5701 ctgattttga ttttaattat ctggttcctc caacagttga atctaaaact aaacccttct 5761 cagtcccagt gctaaccctt aatgagctga ccaactctcg ttttcctgtt ccgattgatg 5821 ccatgtacac cagccctaat gactcaattg tggtccaacc tcaaaatgga agggcaacca 5881 tagacggtga gttgcttggc accactcaac tcatacccag tggtatctgt tcatttaggg 5941 gaaaaatcac aacacatttg tcagatgata ggcacttgtg gaacatccaa gtctccaatt 6001 tgaatggcac tccgtttgac ccaacagacg acgtgcccgc accattgggt atgccagact 6061 tctctgggca aatatttggg gtggttagtc aaagggacac aggcaccaac cccgcaaaca 6121 gagctcatga cgctgttctt gcaacctaca gcgccaaata cacacctaag ctcggctcag 6181 tccaaattgg aacatgggac accgaggatt tgcttgaaag acagcctgtc aagttcacgc 6241 ccgttggtct caatgaaata gggcaagaca agcatttcga ccaatgggtg ttgccaaatt 6301 attctggtgc cctgggactc aacatgcacc tggctcctgc tgtatcccca ctctttcccg 6361 gagagagatt attgttcttt agatcatata tacctctaaa aggtggccat ggggacccat 6421 ttattgattg tcttgtgcca caagagtgga tacaacattt ttaccaagaa tcagccccag 6481 cacaatcctc ggtggctcta ctgaggtatg tgaatccaga cacaggtcgc actctatttg 6541 aggccaaatt acacaaggaa gggtttatca ccgtctctag cacggaaaat aggcctgtga 6601 ttgtcccccc aaatggttac tttaggtttg actcttgggt taaccaattt tactcattag 6661 cccccatggg aactggcaat gggcgcagaa ggatgcagta atggctggag cttttatagc 6721 aggacttgct ggtgacattg tcactaacgg cattggttcg cttgtgaacg ctggagccaa 6781 tgctataaac caaaaagttg attttgaaaa taacaaacag ctacaacagg cctcttttaa 6841 ccatgacaaa gagatgctgc aagcccaaat tcaagccacc aaacagctac aggctgacat 6901 gatttcaatc agacaagggg ttttgaccgc gggcggcttc tcccctactg atgctgcaag 6961 gggtgcagtc aacgcaccga tgacccaagt gctggactgg aatggaacta gacattgggc 7021 ccctggagcc tcaagaacta ccagcttctc tggtgggttc accaattcta cccgtgccag 7081 aacagttgag ccacctaaaa gttccccccc tgttcaaaat actttgatct ctgcttctag 7141 acctagctct actgtctcat cttcctctac ccgttcgact gtggttacta gctcttctac 7201 tcccccatct attaggtctt ctgtaactag aagttcaccc cgcagtgttt ctcaatctgt 7261 ttctcctgtt tcttctcgca ctggtgattg ggtgcaaaac caaaatagaa tgctggagcc 7321 atatctgagg gggtcgttgc aaacagcctt cgtgtcgccg ccctccagta aggcctctag 7381 taatggcact gtctcaactg tgccaaaaga agttttggac tcctggacat ctgcgtttaa 7441 tacccgcaga cagccgctct tcgctcacct ccgtcggagg ggggagtcac aagcttagtg 7501 aaaagaatta gattttcttt ttctttcttt ccttttgttg aaaatcttat gtcttttaaa 7561 aaaaaaaaaa aaaaaaaa //