Typing tool
|
Complete norovirus genomes
MK752946 | GII.13 | ||
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GII.P16 |
ORF1: 4..5100 ORF2: 5081..6709 ORF3: 6709..7440LOCUS MK752946 7457 bp RNA linear VRL 11-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2015/GII.P16-GII.13/Brown0733 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MK752946 VERSION MK752946.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7457) AUTHORS Barclay,L., Cannon,J.L., Wikswo,M.E., Phillips,A., Browne,H., Montmayeur,A.M., Tatusov,R.L., Burke,R.M., Hall,A.J. and Vinje,J. TITLE Emergence and characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7457) AUTHORS Barclay,L., Cannon,J.L., Davis,T., Montmayeur,A.M., Tatusov,R.L. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (04-APR-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..7457 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Brown0733" /isolate="Hu/US/2015/GII.P16-GII.13/Brown0733" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="16-Dec-2015" /note="genotype: GII.P16-GII.13" gene 4..5100 /gene="ORF1" CDS 4..5100 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QBS47669.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDNLQKPPRPPTPELVKRMPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQP DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI SMAKVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND SWLSRRMVQRTTGFFRPYQEWNRKPLPTVDDSKIKKVANVFLCSLSTLFTRPIKDLMG KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLARE VARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE KAKRDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR ASGLLHERMDEFELQGPTVTTFNFDRNRIAAFRQLAAENKYGLVDTMRVGNQLKGVKT MEELKQAIKNVTIKRCRIIYGGSTYDLESDGKGRVLVEKVKNTSVQTNNELAGALHHL KHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIVRRMNIQELWSKPPLDQNESEAKEEA PKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERVTLGLVT GSEIRKRNPDDFKPKGQLWADDDRSVDYNEKLNFEAPPSIWSRIVSFGSGWGFWVSPS LFITSTHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRSDVTGMILEEGAPEGT VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWN GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKVYGKIKKRLLWGSDLS TMIRCARSFGGLMDEMKAHCITLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKISINEGLPSGVPCTS QWNSIAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKE YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN HEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEP MFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 4..996 /gene="ORF1" /product="p48" mat_peptide 997..2094 /gene="ORF1" /product="NTPase" mat_peptide 2095..2625 /gene="ORF1" /product="p22" mat_peptide 2626..3024 /gene="ORF1" /product="VPg" mat_peptide 3025..3567 /gene="ORF1" /product="Pro" mat_peptide 3568..5097 /gene="ORF1" /product="RdRp" gene 5081..6709 /gene="ORF2" CDS 5081..6709 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QBS47670.1" /translation="MKMASNDAAPSNDGAASLVPEAINETMPLEPVAGASIAAPVAGQ TNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAIPPNFPVDMISPAQITMLPHLIVDVRTLEPIMIPLPD VRNVFYHFNNQPQPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFIYLVPP SVESKTKPFTLPILTISELTNSRFPIPIEQLYTAPNENNVVQCQNGRCTLDGELQGTT QLLSSAVCSYRGRTVANSGDNWDQNLLQLTYPSGASYDPTDEVPAPLGTQDFSGLLYG VLTQDNVSEGTGEAKNAKGVYISTTSGRFTPKIGTIGLHSITENVHPNQQSRFTPVGV AQNENTPFQQWVLPHYAGALALNTNLAPAVAPTFPGEQLLFFRSRVPCVQGLRGQDAF IDCLLPQEWVNHFYQEAAPSQADVALIRYVNPDTGRTLFEAKLHRSGFITVSHTGTYP LVVPPNGHFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6709..7440 /gene="ORF3" CDS 6709..7440 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBS47671.1" /translation="MAGAFIAGLAGDMLTSAVGSLTSAGANAINQKLNFDYNKQLQNA SFQHDKEMLQAQIDATKKLQSEMIAIKHGVLTVGGFSPADAARGAVNAPMTRVLDWSG TRYYAPNSVQTTSYSGQFTPSPVHRAQVKSPSNSSQRTAAPSSIRSLSTQSTSLGSTS SGGSSTISSSSRTANWVQQQRALSPYMQGALKTAYVTPPSSRASSMSSVSTVPKGVLD SWTPVFNTRRQPLFAHLRKRGESQV" ORIGIN 1 tgaatgaaga tggcgtctaa cgacgctacc gttgccgttg cttgcaacaa caacaacgac 61 aaggaaaaat cttcaggtga aggcttattc acaaacatgt cttccacctt aaagaaagcc 121 ctcggggctc ggcccaaaca gcctgccccg agggacaact tacaaaagcc cccaagacca 181 ccaactcccg agttggttaa gaggatgcct cctcccccac caaacggaga agaagaagaa 241 ccagtcatta ggtatgaggt taagagtgga atctctggcc tgcccgagct cacaacagtc 301 cctcaaccgg atgtggccaa cacggcattc agtgtcccac cgctgagctt gagagaaaac 361 agggaggcca aggaaccgct gacaggggca atattagaga tgtgggatgg agagatatac 421 cactatggcc tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagct 481 ataagcatgg caaaagtgga gctgacgccg ttgtcattgt actggcgtgt ggtctacacc 541 ccccaatacc tcatctcccc tgaaactctc aggaggctca acggagaggc gttcccctac 601 actgcctttg acaacaactg ctatgccttt tgctgttggg tattagacct caatgactca 661 tggcttagca ggaggatggt gcaaagaaca acaggcttct tcagacctta ccaagagtgg 721 aatagaaaac ccctgcccac tgtggatgac tccaaaatca agaaggtggc aaacgtattc 781 ctgtgctcac tgtccacgtt gttcaccaga cctataaaag acctcatggg aaaaattaag 841 ccattaaaca tcttgaacat cctggcaacg tgtgactgga cattcgccgg gatagtggag 901 tctcttatat tacttgctga actctttgga gttttctgga cacccccaga tgtgtctgct 961 atgatcgctc ctttacttgg agactacgag ttgcaagggc cagaagacct tgccgttgag 1021 ctcgtacctg tagtgatggg agggattggt ttggtgttgg gattcaccaa agagaaaatt 1081 ggaaaaatgt tgtcctcagc agcatcaacg ctcagggctt gtaaagatct tggtgcctat 1141 ggcttggaga tactcaaact ggtcatgaag tggttcttcc caaagaaaga ggaggccaat 1201 gagctagcca tggtgagagc tatagaggat gctgtactag atcttgaggc aatagaaaat 1261 aatcacatga caactctgtt gaaagacaaa gacagcctag caacctacat gaaaacacta 1321 gacatggagg aggaaaaggc cagaagattg tctacaaaat ctgcatcccc tgacatagtt 1381 gggacgatca acgccctgct ggctcgaata gcagcggcta ggtcactagt ccacagggcc 1441 aaggaggagt tatctagcag gataagacca gtggttgtta tgatatctgg caaaccaggg 1501 ataggcaaaa ctcatttagc cagggaagtg gcaagaaagg tggcatccac tctcacagga 1561 gatcaaagag tcgggctcat accgagaaac ggtgtggacc attgggatgc atacaaaggt 1621 gagagagtcg tgttgtggga cgactatggc atgagcaacc ccattcatga tgctctgcgc 1681 atacaagaat tggctgacac gtgtcccctt accttaaatt gtgacagaat tgaaaataag 1741 ggaaaagttt ttgacagtga agtcataata atcacaacaa accttgccaa tccagctcca 1801 cttgattatg tcaactttga ggcctgttcc aggagaattg acttcctggt gtacgccgag 1861 gcaccagaag tagaaaaggc aaaacgagac tttcctggtc aaccagatat gtggaaggac 1921 gccttcaagt cggacttttc acatatcaag ctgcaacttg cacctcaggg cggctttgac 1981 aagaatggca acaccccaca tgggaaagga gtgatgaaga ccctcaccac cggttcactg 2041 atcgcccgtg catcaggctt actgcatgag aggatggatg aatttgaact ccaaggcccc 2101 acagtcacca cctttaattt tgaccggaac agaatcgctg cattcagaca attggctgca 2161 gaaaacaagt atggattggt ggacaccatg agagttggca atcaattaaa aggggtgaaa 2221 accatggaag aactcaaaca agcaatcaag aatgtgacca tcaagaggtg ccggatcatc 2281 tacggcggct ccacgtatga ccttgaatct gatggtaagg gcagagttct ggtggaaaag 2341 gtcaagaaca cctctgtaca gaccaacaac gagttggccg gagccctgca tcacctcaaa 2401 catgcccgaa tcaggtacta tgtcaaatgt gtgcaagaag cagtctactc tatcatacaa 2461 atcgccggag ctgcgtttgt caccacacgc atagtacgcc gcatgaacat acaagagctt 2521 tggtcgaagc caccattaga tcaaaatgaa tcagaggcta aggaagaggc ccccaagtca 2581 gaagatgacg agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa 2641 aacaaaactg gccgtggcaa gaaacatact gcattctcta gcaagggctt gagcgatgag 2701 gagtacgacg agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag 2761 tatcttcaag acagagacag gtactatgag gaactcgcca tcgccaaggc cacggaagaa 2821 gacttctgtg aggaggagga gatcaaaatc cgtcagagga tcttccgtcc caccaggaag 2881 caaaggaagg aagagagggt cacactaggg ctagtaactg gatcagaaat cagaaaaaga 2941 aaccctgatg acttcaaacc taaagggcaa ctgtgggctg atgacgacag aagtgttgac 3001 tacaatgaga aactgaactt tgaggccccc ccaagcatat ggtctaggat tgtgagtttt 3061 ggttctggtt ggggtttctg ggtgtcacca agcctgttca taacatcaac tcacgtaatc 3121 cctgcaggca taacagaggc atttggtgtc cccatcaaac aaatccaggt ccacaaatca 3181 ggtgaatttt gtcggttcag attcccaaaa ccaattagat cagatgtgac aggaatgatc 3241 ttggaagaag gtgcgcctga gggcaccgtg gcaaccgtgc tcatcaaacg ccctaccgga 3301 gagctcatgc cccttgcagc cagaatggga acacacgcaa ccatgaaaat tcagggccgc 3361 atggttggcg gacagatggg tatgttgctc actggttcaa acgctaaagg aatggattta 3421 ggaacaactc ctggtgattg tggctgtccc tacatctaca aaaggggcaa tgactatata 3481 gtcattgggg tgcacacagc agcagcccgt ggtggaaaca ccgtcatctg tgccacacag 3541 ggaagtgagg gtgaggcaac ccttgagggt ggagatgaca aaggaacata ctgtggggca 3601 cccattctag gccccggggg ggcaccaaaa ttgagcacca aaaccaaatt ttggaggtca 3661 tcgaacacgc ctcttccacc agggacgtat gagcctgcct acctcggtgg ccgtgacccg 3721 cgtgttaagg gtgggccctc cttgcagcag gtaatgagag accagttgaa gccattcacc 3781 gagcccaggg gtaaacctcc aagaccaagt gtgttggaag cagcaaaaca aaccatcatc 3841 aacgtcctcg aacaaactct ggaccctcca caaaaatgga catacgcaca ggcgtgtgct 3901 tcactcgaca aaaccacatc cagcgggcac ccccaccatg tccggaagaa tgaattctgg 3961 aatggtgaga ccttcactgg taaattggca gaccaagcat caaaagcaaa tctaatgttt 4021 gaggaaggga aacacatgac accagtgtat acagcagccc tcaaggatga gctggtcaag 4081 actgacaaag tctatggaaa gatcaagaag agactgctct ggggctctga cttgtccacc 4141 atgatccggt gcgccaggtc ctttggtggg ctcatggatg agatgaaagc acactgcata 4201 acactcccag tccgagttgg catgaacatg aatgaagatg gtccaataat atttgagaag 4261 cactctagat acaagtatca ctatgatgca gattactccc gctgggattc aacacaacag 4321 agggcagtgc tagcagcagc cttggagatc atggtcaggt tctctgcaga gccacaattg 4381 gcacaaatag tcgctgagga tctgctggcc cccagtgtgg tagatgtagg agactttaaa 4441 atttcaataa atgaagggct cccctctggt gtaccatgca cttctcaatg gaattccatc 4501 gcacactggc tgctaaccct ctgcgccttg tctgaagtca ccaaactgtc ccctgacatt 4561 gtacaggcaa actccatgtt ctcattttac ggtgatgacg agattgtcag caccgatata 4621 aaattggacc ctgaaaagtt aaccaccaaa ttgaaggagt acggcctgaa accaactcgc 4681 ccagacaaaa ccgagggacc cctgatcatc agtgaggatt tgaacggact cactttcctc 4741 cggagaacgg tgactcgtga cccagctggc tggtttggaa aactggacca aagctcaata 4801 ttgaggcaga tgtactggac tagaggacca aatcatgaag accccaacga gacaatgata 4861 ccccactctc aaagacccat acagctcatg gcactgcttg gtgaggcctc ccttcacgga 4921 ccctctttct acagcaaaat tagtaagttg gtcataactg aactcaaaga aggtgggatg 4981 gatttttacg tgccaaggca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc 5041 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgaatga 5101 cgccgctcca tcgaatgatg gtgcagctag tctcgtacca gaggccatta atgagactat 5161 gccattggaa cccgttgctg gcgcatctat tgctgcccca gtggcgggac aaactaacat 5221 aattgacccc tggataagaa caaattttgt gcaagcccct aatggagagt tcacagtatc 5281 accgagaaat tcccctggag agattttatt aaatttagag ttaggaccag atttgaatcc 5341 ttatctggcc catctgtcaa ggatgtacaa tggatatgct ggaggtgttg aggtgcaagt 5401 gcttcttgct gggaacgcgt tcacagcagg aaagatatta tttgcagcaa tcccacccaa 5461 ctttcctgta gatatgatta gcccagctca gattactatg cttccccatt tgattgtaga 5521 tgttaggaca ttggaaccta ttatgatacc cttaccagat gttaggaatg tgttctatca 5581 ttttaataat caaccccaac ctaggatgag attagtggct atgctctata ccccattgag 5641 atctaatggt tcaggagatg atgtctttac tgtgtcttgt agagtgttga ccaggccaac 5701 ccctgacttt gaattcattt acctagtgcc tccctctgta gagtccaaaa ctaaaccatt 5761 cacacttcca atattgacca tttctgaatt aaccaactcc cggtttccca tcccaattga 5821 gcaactgtac acggccccaa atgagaataa tgttgtacag tgtcaaaatg gaaggtgcac 5881 cttggatgga gagcttcagg gcaccaccca gctgctatca agtgcagtct gctcttacag 5941 gggtaggact gtggctaaca gtggggacaa ttgggaccag aatttgctcc agttgaccta 6001 cccaagcggt gcaagctatg accccactga tgaagtacca gcacccttgg gcacccagga 6061 ttttagtggg ttgttgtatg gggtgttaac ccaagacaat gtaagtgagg gtacagggga 6121 ggccaaaaat gctaagggag tatacatatc caccaccagt ggaagattca ccccaaaaat 6181 tggaacaatt ggattgcatt caataactga aaatgtgcac cccaatcagc aatcacggtt 6241 cacacccgtt ggagttgctc agaatgaaaa tacccccttc cagcaatggg ttctaccaca 6301 ctacgcaggt gctctcgctc taaacaccaa cttggcaccc gctgttgccc cgactttccc 6361 tggcgagcaa ttactgttct tcaggtcccg tgttccatgt gttcaaggtc tgcgggggca 6421 ggatgctttc atagactgtc tcctacctca agagtgggtg aaccattttt atcaagaggc 6481 tgctccctcc caagcagacg ttgccctcat caggtatgtc aaccctgata ctggtcgcac 6541 gctgtttgag gccaaattgc acaggtcagg tttcattact gtgtcacaca ctggtaccta 6601 cccccttgtg gtccccccaa atggtcattt caggtttgat tcttgggtta accaattcta 6661 ctcactcgcc cccatgggaa ctggcaatgg gcgtagaaga gttcaataat ggcaggagca 6721 tttatagctg gtctagccgg tgacatgctg acttctgctg ttggttcact gacctctgca 6781 ggagccaatg ctatcaatca gaaattgaat tttgattaca ataaacaact ccaaaatgca 6841 tcctttcaac atgataagga aatgttgcag gcccaaattg atgctacgaa gaagcttcaa 6901 tcagaaatga ttgcaattaa gcatggggtt ttgaccgtgg gcggcttttc cccagctgat 6961 gcagccagag gggcagtcaa cgccccaatg actcgagtgt tggattggtc agggacacgc 7021 tactacgctc caaattctgt gcaaaccacc agttattccg ggcaattcac cccctcgcca 7081 gtccatcggg cgcaggtgaa gtccccttcc aattcatctc agcggactgc agctccaagc 7141 agtatccgca gcctgtcaac ccaatcaact tctttaggct ccacctcctc aggggggtcc 7201 tctacaatct cctctagttc gaggacagca aactgggtgc aacaacaaag ggctcttagc 7261 ccgtacatgc agggagccct gaagacggca tacgtcacac cgccgtctag tagggcttcc 7321 agtatgagct ctgtctcaac agtgcccaaa ggggttttgg actcctggac acctgtgttt 7381 aacacacgca ggcagccgct gtttgcacac ctcaggaaga ggggggagtc acaggtttag 7441 tgaaaaggat aatcaac //