Typing tool
|
Complete norovirus genomes
MT344181 | GII.17 | ||
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GII.P17 |
ORF1: 1..5103 ORF2: 5084..6706 ORF3: 6706..7485LOCUS MT344181 7562 bp RNA linear VRL 01-MAY-2020 DEFINITION Norovirus GII isolate 118-3 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MT344181 VERSION MT344181.1 DBLINK BioProject: PRJNA604000 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7562) AUTHORS Yang,Z., Williams-Hill,D., Wolfe,J., Silva,A.J., Hirneisen,K., Ruelle,S., Kulka,M. and Hellberg,R. TITLE Direct Submission JOURNAL Submitted (13-APR-2020) Molecular Virology Team/Devision of Molecular Biology, OARSA/CFSAN/FDA, 8301 Muirkirk Rd., Laurel, MD 20708, USA COMMENT ##Assembly-Data-START## Assembly Method :: CLC GWB v. 11 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7562 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="118-3" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="18-Dec-2015" /note="genotype: GII.P17-GII.17" gene <1..5103 /gene="ORF1" CDS <1..5103 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QJA16357.1" /translation="MASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARSK QPPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQP DAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAI SFAKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLND SWLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIG KLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPE DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFF PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLS TKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARE LAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADT CPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIE KAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIAR ASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVKT LDELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHL RSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRGG CPKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERN GKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGL VTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVS PSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPE GTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPG DCGCPYIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPIL GPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTE PRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDY WSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSD LSTMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRW DSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPC TSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKL KEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRG PNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQ ESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide <1..993 /gene="ORF1" /product="p48" mat_peptide 994..2091 /gene="ORF1" /product="NTPase" mat_peptide 2092..2628 /gene="ORF1" /product="p22" mat_peptide 2629..3027 /gene="ORF1" /product="VPg" mat_peptide 3028..3570 /gene="ORF1" /product="Pro" mat_peptide 3571..5100 /gene="ORF1" /product="RdRp" gene 5084..6706 /gene="ORF2" CDS 5084..6706 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QJA16358.1" /translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLLFRSFVPCSGGYNQGIID CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ" gene 6706..7485 /gene="ORF3" CDS 6706..7485 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QJA16359.1" /translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV" ORIGIN 1 atggcgtcta acgacgcttc cgctgccgtt gctggcaaaa acaacaacaa cgacaaggaa 61 aaatcttcaa gtgacagcct gtttgctaac atgtctgtca cttttaagaa agccctcggg 121 gcgcggtcta aacaaccgcc cccgggagaa acaaaacaaa tacaaaaacc accaaggcca 181 ccgacaccgg aattggtgaa gagaatacct ccacccccac ccaatggcga ggatgaacca 241 gggatagtgt acaaggtggg agagggtgtg tctgggctgc ccgacctaac aactgtggta 301 caacctgacg cacaaaacac agcttatagt gttcccccac ttagccagag agaagtcggc 361 gaagctaaag aaccgctgcc tggctccatt ctggaaatgt gggatggtga gatctaccac 421 tatgggctgt atgttgagcg ggggcatgtg ctcggagtac acaaaccacc tgctgcaata 481 agctttgcca aaattgaaat aacaccgctg tctctctact ggagagtggt ctacactccc 541 cagtatttga tagatccagg aactcttaag aacttgagtg gagagacttt cccatacacg 601 gcctttgaca acaactgtta tgccttctgt tgttgggtcc tagacctcaa cgactcctgg 661 cttagcagga gaatgatcca aagaacaact ggattcttca aaccttatca ggattggaac 721 agaaaaccct taccaaccat ggatgaaccg aaaatcaaga aggccgcgaa tgctgtccta 781 tgcgctctct cctcactctt cactagaccc atcaaggaca tcattggaaa gcttagacca 841 ctgaacattc ttaatatact ggcaacctgc gattggactt ttgcaggcat agtggaatcc 901 ttgatccttc ttgctgaact ctttggggtg ttctggacac ccccagatgt gtctgcgatg 961 attgctccct tactcggtga ctacgagatg caaggccccg aagacctggc cgtggaactt 1021 gtgcccgtgg tgatgggagg aataggtttg gtgttaggat tcaccaaaga aaagatcggc 1081 aagatgcttt catcagctgc gaccacactt agggcctgca aggatctagg atcttatgga 1141 ttggagatac tcaaattggt catgaagtgg ttcttcccca agaaggagga ggctaacgaa 1201 ctagccatgg tgagggccat tgaggatgca gtcctggatt tggaggcaat agaaaacaat 1261 cacatgacca cccttctcaa ggataaagac agcctggcca catacatgag gactctcgac 1321 ttggaagaag agaaagcaag gaaactgtca accaaatcgg cgtcacctga catcgtgggt 1381 acaataaacg cattattggc taggatagca gccgccaggt cactggtcca caaggctaag 1441 gaggagctct cgagcagaca gagacctgtt gttgtaatga tatcaggtag accaggtata 1501 ggaaagaccc atctggccag agagctagcc aagaaagttg cgtcaacact gtcaggcgac 1561 caaaggattg gactggtacc tagaaatggc gtcgaccatt gggacgccta caagggagaa 1621 agggtggttc tgtgggatga ttatggtatg agcaacccta tacaggacgc actgaggctc 1681 caagaattgg ctgacacctg tcctctgacc ctaaattgtg ataggattga aaacaaagga 1741 aaagtgttcg acagtgatgc cataattata acaaccaacc ttgcaaaccc agcaccacta 1801 gactatgtca actttgaggc ctgctctaga cgcatagact tcttggtgta tgcagacgca 1861 cctgacattg agaaggctaa gcgtgacttc cctggccaac cagatatgtg gaaagaccat 1921 ttcagaccag acttctcaca cattaaactt cagctggcac cgcagggagg ttttgacaaa 1981 aatggcaaca ccccacatgg taaaggtgta gtgaagtccc tgacgattgg ttctctgatc 2041 gccagggcct ccggcttgct ccacgagaga atggatgaat tcgagctcca aggctctgac 2101 ctgccaacct tcaattttga ccgcaacaaa gtcgccgcct tcagacaatt agcagctgaa 2161 aacaaatatg gtcttatgga cacactgagg gtcggcaacc aactgaaaag tgttaagacc 2221 ctggatgagc tgaagcaggc cataaagaac atcagtatca agaagtgtca gatagtgtat 2281 aatggatgca cctataccat ggaatctgat gggaggggca aggttgtggt tgaaaaggta 2341 caaaacgcaa cagttcaaac caacaatgaa cttgtagggg cgctccacca cctgagatct 2401 gcaaggataa gatactatgt taaatgtttc caagaagcca tttactctct actccaaatt 2461 gctggtgcag ccttcgtcac ctcacgcatc gtgaggcgca tgaacatatc aaacctctgg 2521 tcgaagccac ccatcgagga gggtgatgag cctgaagaca gagggggatg ccccaagccc 2581 agggatgaag atgacctcac tattgactct agagacatta aagtggaagg gaagaagggc 2641 aagaacaagt ctggccgggg caagaaacac acagccttct cttccaaggg cctcagtgat 2701 gaagagtacg atgagtacaa gagaatcaga gaggagagga atggcaaata ctcgatagag 2761 gaatacctcc aagataggga cagatactat gaagagcttg ccattgctaa ggccactgag 2821 gaggacttct gtgaggagga ggagatcaaa atccgccaga gaatcttccg acccaccagg 2881 aagcagcgga aagaggaaag ggccacgctt gggcttgtca caggatcgga aatcagaaag 2941 aggaatccag atgactttaa accaaaagga aaattgtggg ctgatgacaa caggagcgtg 3001 gattacaatg agaggataga ttttgaggct cccccgagtg tttggtctag gatagtcaac 3061 tttggcacag gctggggatt ctgggtttct ccaagtctct ttataacttc aacacacgtc 3121 ataccaaaag gaatcactga ggcctttgga gtgcccataa accaaatcca aattcacaaa 3181 tctggagaat tttgccgctt gcggtttcca aagccaatta ggccagacgt gagtgggatg 3241 atcttggaag agggcgcccc tgaaggcact gttgtgtcta ttctcatcaa aaggacaaca 3301 ggggagctga tgcctcttgc agtcagaatg gggactcatg ccacaatgaa aatccaaggt 3361 agaacggtgg gtggtcagat gggtatgctt ctcactggct caaatgctaa aagcatggat 3421 ctaggcacaa cgccaggtga ctgcggatgt ccatacatat acaaaagggg caatgacctt 3481 gtggtcattg gggtgcacac tgcagcagct cgtggaggca acacggtcat atgtgccaca 3541 cagggaagtg aaggtgaagc cactcttgaa ggaggtgaca acaagggtac ctattgtgga 3601 gcccccattt tgggacctgg caatgcacca aaattgagca caaagacaaa attctggaga 3661 tcctctaacg caccgcttcc cccaggtact tatgaaccag cataccttgg tgggagagac 3721 ccgcgcgtga agggaggccc atctctgcaa caagttatga gagaccaact taaacctttt 3781 acagagccca gagggaagcc accaaaccca aatgtcttag agtcagcaaa gaagactatc 3841 atcaatgttc tggaacaaac cattgacccc cctcaaaagt ggtcatatgc ccaggcttgt 3901 gcatccctcg acaagacaac ctccagtgga tacccgcacc acgtccggaa gaatgactat 3961 tggagtggtg aatccttcac aggaaaactt gcagatcagg cttcaaaagc aaatctcatg 4021 tatgaggaag gcaagcacat gcaaccagtt tacaccgcag cactcaaaga cgagctcgtg 4081 aaaactgaca aaatttatgg caaaatcaag aaaagactcc tgtggggttc tgacctctcc 4141 acaatgattc gatgcgccag agcatttggt ggtctcatgg atgaattcaa agcaaattgt 4201 attacactcc ctatcagagt tggtatgaat atgaatgaag atggtcccat aatatttgag 4261 aaacactcca ggtacaggta ccactatgat gctgattact cccgctggga ctccacacaa 4321 cagcgggcag tgctggaagc ggcacttgaa atcatggtga gattttctgc tgagccacag 4381 ctggcacaaa tagtggcaga ggacctgctg tcaccaagtg tggttgatgt gggcgatttc 4441 aaaatcgcta tcaatgaagg cctaccatct ggcgtgcctt gcacctcaca atggaattct 4501 attgcccact ggttacttac cttgtgtgcc ctttctgaag tgacaggatt aggtcctgac 4561 atcatacaag ctaactccat gtactctttc tatggtgatg atgagattgt gagcacagac 4621 ataaaattgg acccagagaa attgaccgca aagctcaaag aatatggcct taaacccact 4681 cggcccgaca aaactgaggg gccgttggtg attagtgagg acctgaatgg gttgactttc 4741 ctccgccgaa cagtcacccg tgatccagca ggttggtttg gaaagttgga ccaaaactcc 4801 atcctcaggc agttgtactg gacaagagga cccaaccatg aagaccccag tgagaccatg 4861 ataccacacg cacaaagacc tgtgcagctc atggcactac taggagaatc ctccctacat 4921 ggaccctcat tttacagcaa ggttagcaaa ttagtcatat ctgaacttaa agagggagga 4981 atggattttt atgtgcccag acaagagtca atgttcagat ggatgaggtt ctcagatcta 5041 agcacatggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgaa 5101 tgacgccgct ccatctaatg atggtgctgc tggtctcgta ccagagggca acaacgagac 5161 ccttccccta gaaccagttg cgggcgcagc tatagccgca cccgtcactg gccaaaataa 5221 cataattgac ccctggatta gaacaaattt tgtgcaagca ccaaatggag agttcacagt 5281 gtcacccaga aactctcctg gagaaatttt attaaactta gagttgggcc ctgatttgaa 5341 cccttatttg gctcatttgt caaggatgta caatgggtat gctggtggag tggaagttca 5401 ggttctcctg gcagggaacg cgttcactgc cggaaagatc ctcttcgccg ccgtcccgcc 5461 aaatttccca gtggaattct taagcccagc ccagatcaca atgctcccac atttaatagt 5521 agatgttagg actcttgaac caattatgat cccactccct gatgttagga atacattctt 5581 ccattatagt aaccagccta acagccgcat gagattagtg gctatgctct ataccccact 5641 cagatctaat ggctcaggtg atgatgtctt tactgtctct tgcagggttt tgactaggcc 5701 tactcctgat tttgagttca cttatttagt gccaccttct gttgaatcta aaactaagcc 5761 tttttcctta cctattttaa ccctttctga gctcacaaat tcgaggttcc cagtccccat 5821 cgattcgctt ttcaccgccc agaataatgt gttgcaggtg cagtgtcaaa atggcaggtg 5881 tacacttgat ggtgagttac aaggcacaac ccagttgctc ccatctggca tctgtgcatt 5941 cagaggacgg gtgacagcac aaattaacca acgtgacagg tggcacatgc aactgcaaaa 6001 cctcaatggt acaacatatg acccaactga tgatgtgcca gccccgctgg gtacacctga 6061 cttcaagggc gtcgtgtttg ggatggtaag ccaaagaaat gtgggtaatg atgcgcctgg 6121 ctcaaccaga gcccaacagg cgtgggtttc aacctatagc ccccaatttg tccccaaatt 6181 aggttctgtc aatcttagaa ttagtgataa tgatgatttc caattccagc cgacaaaatt 6241 cacaccagtg ggcgtcaatg atgacgatga tggccacccg ttcagacaat gggaactacc 6301 aaactattca ggggagctta ccttgaacat gaatcttgcc cccccagttg ctccaaattt 6361 tcctggtgaa caattgttat tattcagatc tttcgtgcca tgctcaggag gttacaacca 6421 aggtattata gattgtctta ttccccaaga atggatccaa cacttctatc aggaatcagc 6481 accctcccag tcagacgtgg ccctaatcag gtatgtcaac cccgatacgg gacgtacact 6541 gtttgaagca aaattgcaca gatctggtta cattactgtg gctcactctg gagactatcc 6601 tcttgttgtt ccggctaatg gacactttag atttgattct tgggtaaatc agttttactc 6661 actcgcccca atgggaactg ggaatgggcg aaggagggct cagtaatggc tggggctttc 6721 attgcaggat tggcaggcga catgctcacg tcatctgtgg gctcccttgt gaacgcaggg 6781 gcaaacgcca tcaaccaaaa gatagacttt gaaaacaaca aacaactcca gtctgcttcc 6841 tttcagcatg ataaagagat gctccaagcg caggtgaggg caaccaagca gctgcaatct 6901 gaaatgatag ccctaaaaca gggggttttg gccgcaggcg gcttttcccc cactgatgca 6961 gcaaggggat ccattggtgc acccatgaca aaggtgcttg actggtctgg cactcgatac 7021 tgggcgccca attccacaaa gacaactggc tattcgggac aattcacctc ttcacctgtg 7081 catatgtcta gcccaaatgc tccacaatca aaacctgcaa agcctaggtc tctagctcct 7141 tcctcttctt ctagcagtgt ctatagtatg tatacccaat ctactcattt aacatctggc 7201 tcttctagta atgcttcttc tgcctccaca aaattgacaa atttaagctc tggctcctct 7261 caaaacagaa cagcagagtg ggtaaatcaa cagagaagtc ttagcccttt catgagtggc 7321 gcacttaaca tctcacatgt cacgccaccc tcaagtaggg cttccagttc tgggacggtc 7381 tcgaccgtgc ccaaggaagt tttggactcc tggacgtctg cgtttaacac acacagacag 7441 ccgctcttcg cacacctcag agtgaggggg gagtcacgtg tttagtgaaa agaaataatt 7501 ggctataatg tgatttcttt ctaaatttgg ctaatttgta tcttttaaaa aaaaaaaaaa 7561 aa //