Typing tool
|
Complete norovirus genomes
MK753030 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 1..5099 ORF2: 5080..6702 ORF3: 6702..7508LOCUS MK753030 7545 bp RNA linear VRL 11-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2015/GII.P16-GII.4 Sydney/Marin0375 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MK753030 VERSION MK753030.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7545) 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characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7545) AUTHORS Barclay,L., Cannon,J.L., Pan,C.-Y., Montmayeur,A.M., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (05-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..7545 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Marin0375" /isolate="Hu/US/2015/GII.P16-GII.4 Sydney/Marin0375" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="19-Nov-2015" /note="genotype: GII.P16-GII.4 Sydney" gene <1..5099 /gene="ORF1" CDS <1..5099 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QBS54660.1" /translation="KMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPK QPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEGEPVIRYEVKSGISGLPELTTVPQP DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI SMARVELTPLSLYWRVVYTPQYLIAPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND SWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIG KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLARE VARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE KAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR ASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKT MEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHL KHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKVEA PKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERTTLGLVT GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS LFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWN GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLS TMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTS QWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKE YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN HENPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEP MFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide <1..995 /gene="ORF1" /product="p48" mat_peptide 996..2093 /gene="ORF1" /product="NTPase" mat_peptide 2094..2624 /gene="ORF1" /product="p22" mat_peptide 2625..3023 /gene="ORF1" /product="VPg" mat_peptide 3024..3566 /gene="ORF1" /product="Pro" mat_peptide 3567..5096 /gene="ORF1" /product="RdRp" gene 5080..6702 /gene="ORF2" CDS 5080..6702 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QBS54661.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLATPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6702..7508 /gene="ORF3" CDS 6702..7508 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBS54662.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS NSSTATSVYSNQTVSTRLGSTAGSGTSVSSLPSTVRTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 tgaagatggc gtctaacgac gctaccgttg ccgttgcttg caacaacaac aacgacaagg 61 aaaaatcttc aggtgaaggc ttattcacaa atatgtcttc caccttaaag aaagccctcg 121 gggctaggcc caaacagcct gccccgagag acgaaccaca aaagccccca agaccaccaa 181 ctcccgagtt ggtcaagagg ataccccctc ctccacctaa tggcgaagaa gaaggagaac 241 cagtcattag gtatgaggtt aagagtggga tctctggcct gcccgagctc acaacagtcc 301 cccaaccgga cgtggccaac acagcattca gtgttccacc actgagcttg agagaaaaca 361 gagaggccaa ggaaccgcta acaggggcaa tattagagat gtgggatgga gagatatacc 421 actatggcct gtacgtggag aaaggcttag tgttgggtgt gcacaaacca cctgcagcca 481 taagcatggc aagagtggag ctgacgccgc tgtcattgta ctggcgtgtg gtgtacactc 541 cccaatacct catcgcccct gaaactctca ggaggctcaa cggagaggcg ttcccttaca 601 ctgcctttga caacaactgc tatgcctttt gctgctgggt gttagacctc aatgactcat 661 ggcttagcag gaggatggtg caaagaacaa cgggcttctt cagaccttac caagagtgga 721 acagaaaacc cctgcctacc atggatgact ccaaaattaa gaaggtagca aatatattcc 781 tatgttcatt gtccacatta ttcaccagac ccataaaaga cctcatagga aaaattaaac 841 cattaaacat attgaatatc ctggcaacgt gtgactggac gtttgccgga atagtggagt 901 ctctgatatt acttgctgaa ctcttcggag ttttctggac acccccagat gtgtctgcta 961 tgatcgctcc cttactcggg gactacgagt tgcaagggcc agaagacctc gccgttgaac 1021 tcgtacctgt ggtgatggga gggattggtt tggtgttggg attcaccaaa gagaaaattg 1081 gcaaaatgtt gtcctcagca gcatcaacac tcagggcttg caaagatctt ggtgcctatg 1141 gcttagagat actcaaattg gtcatgaagt ggttcttccc aaagaaagag gaggccaatg 1201 agctagccat ggtgagggcc atagaggatg ccgtactaga tcttgaggca atagaaaata 1261 accacatgac aaccctgttg aaagacaaag acagcttagc aacatacatg aaaacactgg 1321 acatggagga ggagaaagcc agaagattgt ccacaaaatc tgcatcccct gacatagttg 1381 ggacaatcaa cgccctgctg gctcgaatag cagcggccag gtcattagtc cacagggcca 1441 aggaagagct atctagcagg atgagaccag tagttgttat gatatctggc aaaccaggaa 1501 taggcaaaac tcatctggcc agggaggtgg caagaaaggt ggcatccact ctcacagggg 1561 atcaaagagt cggactcata ccaagaaacg gtgtggacca ttgggatgca tacaaaggtg 1621 agagagtcgt gctgtgggac gactatggca tgagtaaccc cattcatgat gctcttcgca 1681 tacaagaatt ggctgatacg tgtcccctta ccttaaattg tgacagaatt gaaaataagg 1741 gaaaagtttt tgacagtgaa gtcataataa ttacaacaaa ccttgccaat ccagccccac 1801 ttgattatgt caactttgag gcctgttcca ggagaattga tttcctggtg tacgctgagg 1861 caccagaagt agaaaaggca aaacgggact ttcctggtca gccagatatg tggaaggacg 1921 ccttcaagcc ggacttttca cacatcaagc tacagcttgc acctcagggc ggctttgaca 1981 agaatggcaa caccccacat gggaaaggag tgatgaagac cctcactacc ggttctctga 2041 ttgcccgtgc atcaggccta ctgcatgaga ggatggatga atttgaactc caaggtccca 2101 caattaccac cttcaatttc gaccggaaca gaatcacagc attcagacaa ttggctgcag 2161 aaaacaagta tggattggtg gataccatga aagttggcaa tcaactaaaa ggagtgaaaa 2221 ccatggaaga acttaaacaa gcaatcagga atgtgaccat caagaggtgc cggatcatct 2281 acggtggctc cacgtatgac cttgaatctg atggcaaggg caaagttttg gtggaaaagg 2341 tcaagaacac ctctgtacag accaacaacg agttggccgg ggccctgcac catctcaaac 2401 acgcccgaat caggtactat gtcaaatgtg tgcaagaagc agtctattcc atcatacaaa 2461 ttgccggcgc cgcgtttgtc accacgcgca ttgcacgccg catgaacata caagaactct 2521 ggtcgaagcc acaattagat caaaatgaat cagagactaa ggtagaggcc cccaagtcag 2581 aagatgacga gttcatcata tcttctaagg acatcaagga ggaaggaaag aagggcaaaa 2641 acaaaactgg ccgtggcaag aaacacactg cattctccag caagggcttg agcgatgagg 2701 agtatgacga gtacaagagg ataagagaag agagaaatgg gaagtactct atagaggagt 2761 acctccaaga cagagacagg tactatgagg aactcgccat tgccaaggcc acagaagaag 2821 acttctgtga agaggaggag atcaaaatcc gtcagagaat tttccgtccc accaggaaac 2881 aaagaaagga agagaggacc acattagggc tagtaacagg ttcagaaatc agaaaaagaa 2941 accctgatga cttcaaaccc aaagggaagc tgtgggccga tgacaacaga agtgttgact 3001 acaatgagaa actggacttt gaggcccccc caagcatatg gtctagaatt gtgagctttg 3061 gttctggctg gggcttctgg gtatcaccaa gcctgttcat aacatcaact catgtaatcc 3121 ccgcaggcat aacagaagca tttggagtcc ccatcaaaca aattcagatc cacaaatcag 3181 gtgaattttg ccgattcaga ttcccaaaac caattagacc agatgtgaca ggaatgatct 3241 tggaagaagg tgcgcctgaa ggcaccgtgg caactgtgct catcaaacgc cccaccggag 3301 agctcatgcc tcttgcagcc agaatgggaa cacacgcaac catgaaaatt caaggccgca 3361 tggttggcgg acagatgggt atgttgctca ctggatcaaa tgctaaagga atggatttgg 3421 gaacaactcc tggcgactgt ggctgtcctt acatctataa aaggggcaat gactatatag 3481 tcattggggt gcacactgca gcagcccgtg gtggaaacac cgtcatctgt gccacacagg 3541 gaagtgaggg tgaggcaact cttgagggtg gagatgacaa aggaacatac tgtggggcac 3601 ccattctagg ccctgggggt gcaccaaaat tgagcaccaa aaccaaattt tggaggtcat 3661 cgaacacgcc ccttccacca gggacatatg agcctgccta cctcggtggc cgtgatccgc 3721 gtgttaaggg tgggccctcc ttgcagcagg taatgagaga ccagttgaag ccattcactg 3781 aacccagggg caaacctcca agaccaagtg tattggaagc agccaaacaa accattatca 3841 atgtcctcga acaaaccctg gaccctccac aaaaatggac atacgcacag gcgtgtgcct 3901 cacttgacaa aaccacctcc agcgggcacc cccatcacgt ccgaaagaat gaattctgga 3961 atggtgagac cttcactggt aaattggcag accaagcatc aaaagcaaac ctaatgtttg 4021 aggaagggaa acacatgaca ccagtgtata cagcagcact caaggacgag ctagtcaaga 4081 ctgagaaaat ctatggaaag atcaagaaga gactgctctg gggctctgac ttgtccacca 4141 tgatccggtg cgctaggtca tttggtgggc tcatggacga gatgaaggca cactgcatat 4201 cactcccagt acgagttggc atgaatatga atgaagatgg cccaataata tttgagaaac 4261 attccagata caaataccac tatgatgcag actactctcg ttgggattca acacaacaga 4321 gggcagtgct agcagcagcc ttggaaatca tggtcagatt ctctgcagaa ccacagttgg 4381 cacaaatagt cgctgaggat ctgctggccc ctagtgtagt agatgtagga gactttaaaa 4441 tcacaataaa tgaagggctc ccatctggtg tgccatgcac ttctcaatgg aactccatcg 4501 cacactggct gctaactctc tgtgccttgt ctgaagtcac caaactgtcc cctgacatta 4561 tacaagcaaa ttccatgttc tcgttttacg gtgatgacga gattgtcagc accgacataa 4621 aattggaccc tgaacagtta accgccaaat tgaaggagta cggcctgaaa ccaacccgcc 4681 cagacaagac cgagggaccc ctgatcatca gtgaagattt gaatggactc actttcctcc 4741 gaaggacggt gactcgtgac ccagctggct ggtttggaaa actggaccaa agctcaattt 4801 tgaggcagat gtactggact agaggaccaa atcatgaaaa ccccaatgag acaatgatac 4861 cccattctca aagacccata cagctcatgg cactgcttgg tgaagcctct cttcacggac 4921 cctctttcta cagtaaaatc agcaaattgg tcataactga gctcaaagaa ggtgggatgg 4981 acttttacgt gccaaggcag gaacccatgt tcaggtggat gaggttttct gacttgagca 5041 cgtgggaggg cgatcgcaat ctggctccca attttgtgaa tgaagatggc gtcgagtgac 5101 gccaacccat ctgatgggtc cgcagccaac ctcgtaccag aggtcaacaa tgaggttatg 5161 gctttggagc ccgttgttgg tgccgctatt gcggcacctg tagcgggcca acaaaatgta 5221 attgacccct ggattagaaa taattttgta caagcccctg gtggggagtt tacagtatcc 5281 cctagaaatg ctccaggtga aatactttgg agcgcgcccc taggccctga cctaaatccc 5341 tacctatccc atttggccag aatgtacaat ggttatgcag gtggttttga agtgcaggta 5401 attctcgcgg ggaatgcgtt caccgccggg aagatcatat ttgcagcagt cccaccaaat 5461 tttccaactg aaggcttaag tcctagccag gtcactatgt tcccccatat aatagtagat 5521 gttagacaat tagaacctgt gctgattccc ttacccgatg tcaggaataa tttctatcat 5581 tacaatcagt caaatgactc cactattaag ttgatagcaa tgttgtatac accacttagg 5641 gctaataatg ctggggatga tgttttcaca gtttcgtgcc gagttctcac gaggccatcc 5701 cccgattttg atttcatatt tttagtgcca cccacagttg agtcaagaac taaaccattc 5761 tctgtcccag ttttaactgt tgaggagatg accaattcaa gattccccat tcctttggaa 5821 aagttgttca cgggccccag cagtgccttt gttgttcaac cacaaaacgg caggtgcaca 5881 actgatggcg tgctcctagg caccacccaa ctgtctcctg tcaacatctg caccttcaga 5941 ggggatgtca cccacatcac aggtagtcgc aactacacaa tgaatttggc ttctcaaaat 6001 tggaacaact atgacccaac agaagaaatc ccagcccctc ttgcaactcc agattttgtg 6061 gggaagattc aaggcatgct cacccaaacc acaaggacag atggttcaac acgtggccac 6121 aaagctacag tgtacactgg gagcgccgac tttgctccaa aactgggtag agttcaattt 6181 gaaactgaca cagaccatga ttttgaagct aatcaaaaca caaagttcac cccagtcggt 6241 gtcatccaag atggtagcac cacccaccga aacgaacccc aacagtgggt gctcccaagt 6301 tactcaggca gaaatactca caatgtacat ctggcccccg ctgtagcccc caccttcccg 6361 ggtgagcaac ttctcttctt cagatccacc atgcccggat gcagcgggta ccccaacatg 6421 gatttggact gtctgctccc ccaggaatgg gtgcagtact tctaccaaga ggcagcccca 6481 gcacaatctg atgtggctct gctaagattt gtgaatccag acacaggtag ggttttgttt 6541 gagtgcaagc ttcacaaatc aggctatgtt acagtggctc acactggcca acatgatttg 6601 gttatccccc ccaatggtta ctttaggttt gattcctggg tcaaccagtt ctacacgctt 6661 gcccccatgg gaaatggaac ggggcgtaga cgtgtagtat aatggctgga gctttctttg 6721 ctggattggc atctgatgtc cttggctctg gacttggttc ccttatcaat gctggggctg 6781 gggccatcaa ccaaaaagtt gagtttgaga ataacagaaa attgcaacaa gcatccttcc 6841 aatttagcag caatctgcaa caggcttcct ttcaacatga taaagagatg ctccaagcac 6901 aaattgaggc caccaaaaag ctacaacagg aaatgatgaa agttaagcag gcaatgctcc 6961 tagagggtgg gttctctgag acagatgcag cccgcggggc aattaacgcc cccatgacaa 7021 aagctttgga ctggagcggg acaaggtact gggctcccga tgctaggact acaacataca 7081 atgcaggccg cttttccacc cctcaaccat cgggggcact gccaggaaga gctaatctta 7141 gggatgctgt ccctgctcgg ggaccctcca acaaatcttc taactcttct actgctacct 7201 ctgtgtactc aaatcaaact gtttcaacaa gacttggttc tacagctggt tctggaacca 7261 gtgtctcgag cctcccgtca actgtaagga ctaggagctg ggttgaggat caaagtagga 7321 atttgtcacc tttcatgagg ggggcccaca acatatcatt tgtcacccca ccatctagca 7381 gatcctctag ccaaggcaca gtctcaaccg tgcctaaaga gattttggac tcctggactg 7441 gcgctttcaa cacgcgcagg cagcctctct tcgctcacat tcgtaagcga ggggagtcac 7501 gggtgtaatg tgaaaagaca aaactgatta tctttctttt tcttt //