Typing tool
|
Complete norovirus genomes
MN703761 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7469LOCUS MN703761 7469 bp RNA linear VRL 31-JAN-2020 DEFINITION Norovirus GII isolate GII.4_MI_2016_feces nonstructural polyprotein (ORF1) and VP1 (ORF2) genes, complete cds; and VP2 (ORF3) gene, partial cds. ACCESSION MN703761 VERSION MN703761.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7469) AUTHORS Rockey,N.C., Young,S., Kohn,T., Person,B., Wobus,C.E., Raskin,L. and Wigginton,K.R. TITLE UV disinfection of human norovirus: evaluating infectivity using a genome-wide PCR-based approach JOURNAL Unpublished REFERENCE 2 (bases 1 to 7469) AUTHORS Rockey,N.C., Young,S., Kohn,T., Person,B., Wobus,C.E., Raskin,L. and Wigginton,K.R. TITLE Direct Submission JOURNAL Submitted (18-NOV-2019) Civil & Environmental Engineering, University of Michigan in Ann Arbor, 1351 Beal Ave, Ann Arbor, MI 48109, USA COMMENT ##Assembly-Data-START## Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7469 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="GII.4_MI_2016_feces" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA: Michigan" /collection_date="2016" /note="genotype: GII.4" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QGL04901.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS LAKVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTM SDLKQALKNIVIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR CARIRYYVKCAQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGC LKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPNVLEAAKKTVINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCT SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPFETMIPHSQRPMQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide 5..994 /gene="ORF1" /product="p48" mat_peptide 995..2092 /gene="ORF1" /product="NTPase" mat_peptide 2093..2629 /gene="ORF1" /product="p22" mat_peptide 2630..3028 /gene="ORF1" /product="VPg" mat_peptide 3029..3571 /gene="ORF1" /product="Pro" mat_peptide 3572..5101 /gene="ORF1" /product="RdRp" gene 5085..6707 /gene="ORF2" CDS 5085..6707 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QGL04902.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV" gene 6707..>7469 /gene="ORF3" CDS 6707..>7469 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QGL04903.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAAPARGSSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQ" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga 61 catcgcaaaa tcttcaagtg acggtgtgtt ttctaacatg gctgtcactt ttaagcgggc 121 cctcggggcg cggcctaaac agccgccccc gaaggagata ccacccagac ccccgcgacc 181 acccacacca gaattggtca aaaagatccc tcctccccca cccaacgggg aggatgaact 241 agtggtctct tacagcgcca aagatggcgt ttccggactg cctgagctca ccactgtcag 301 acaaccggaa gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gggagagcag 361 ggacgccaag gagccactaa ctggaacaat tattgaaatg tgggatggag aaatctacca 421 ttacggcctg tacgtggaac gaggtcttat acttggtgtg cacaagccac cggcagccat 481 cagccttgcc aaggtcgagc taacaccgct ctctttgttc tggagacctg tatacacccc 541 ccagtatctc atctctccag acactcttag gagattacat ggagagtcat tcccctacac 601 tgcatttgac aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcatg 661 gctaagcagg agaatgattc agagaacaac aggtttcttc aggccgtacc aggattggaa 721 caggaaaccc ctccccacta tggatgattc caaattaaag aaggtagcca acatattctt 781 gtgcactttg tcttcactat tcaccagacc cattaaggac ataataggga agttgaaacc 841 tcttaacatc cttaacattc tggctacatg tgattggacc ttcgcaggca tagtggaatc 901 tttaatactc ttagcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat 961 gatcgccccc ttgctaggtg attatgaact gcaaggacct gaggaccttg cagtggaact 1021 ggtcccaata gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaattgg 1081 aaagatgcta tcatccgctg catccacttt aagagcttgt aaagaccttg gtgcatacgg 1141 actggaaatc ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga 1201 actggctatg gtgagatcca tcgaggacgc agtgctagac ctcgaggcaa ttgagaacaa 1261 ccacatgacc accctactca aagacaaaga cagcttggca acctacatga gaacccttga 1321 ccttgaggag gagaaagcca gaaaactctc aaccaaatct gcttcacccg atattgtggg 1381 cacaatcaac tctcttctgg caagaatcgc tgctgcacgc tctctagtgc atcgggcgaa 1441 agaagagctc tccagcaggc cgagacctgt cgttgtgatg atatcgggaa gaccagggat 1501 agggaaaact caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga 1561 ccagcgtgtg ggtcttatcc cacgcaatgg tgtcgatcac tgggacgcat acaagggcga 1621 aagagttgtc ctatgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt 1681 gcaggagctt gctgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg 1741 gaaagtcttt gacagtgatg ccataattat caccaccaat ctggccaacc cagcaccact 1801 ggattatgtc aactttgaag cgtgctcgag acgtattgac ttcctcgtgt acgcagaagc 1861 ccctgaggtg gaaaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc 1921 tttcagtcct gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa 1981 gaacggcaac accccgcatg gaaaaggggt catgaagacc ctcaccactg gctccctcat 2041 cgcccgagca tcagggttac tccatgagag gctagatgaa tatgaactgc aaggcccagc 2101 cctcaccact ttcaactttg accgcaacaa gatacttgct tttagacagc ttgctgctga 2161 aaacaagtat gggctgatgg acacaatgag agttggaaaa cagctcaagg atgtcaagac 2221 catgtcagac ctcaaacaag cactcaagaa catcgtaatc aagaagtgcc agatagtgta 2281 caatggtagc acctacacac ttgaggccga tggcaagggt agtgtgaaag ttgacaaagt 2341 gcaaagtgcc actgtgcaga ccaacaatga actagccggt gccctacacc acctaaggtg 2401 cgctagaatc agatactatg ttaagtgcgc ccaggaggca ctgtattcca tcatccaaat 2461 cgctggggct gcattcgtca ccacgcgcat cgctaagcgc atgaatatac agaatctctg 2521 gtccaagcca caggtggaag acacagaaga gatgaccaac aaagatggtt gcctaaaacc 2581 caaagatgat gaagagtttg tcgtctcatc cgacgacatc aaaactgagg gcaagaaagg 2641 gaagaacaag tccggccgtg gtaagaagca cacagccttt tcaagcaaag ggctcagtga 2701 tgaggagtac gatgagtaca agagaatcag agaagaaagg aatggtaagt actccataga 2761 agagtacctt caggacagag acaggtacta cgaggaggtg gccattgcca gggcaaccga 2821 agaggacttc tgcgaagaag aagaggccaa aatccggcag agaattttca gaccaacaag 2881 gaaacaacgc aaagaggaga gggcctctct cggcttggtc acaggctctg aaatcaggaa 2941 gagaaaccca gaagacttca aacccaaggg aaagctgtgg gctgatgatg acagaagtgt 3001 tgactacaat gagaaactca actttgaggc cccaccaagc atttggtcgc ggatagtcaa 3061 ctttggttca ggctggggct tctgggtctc ccccagtctg tttataacat caacccatgt 3121 cataccccaa ggtgcaaaag agttcttcgg agtccctatc aagcagatcc agatacacaa 3181 atcaggtgaa ttctgccggc tgagattccc aaagccaatc agaactgatg tgacgggcat 3241 gattctagaa gaaggtgcgc ccgaggggac cgtggccaca ctgctcatca agagaccaac 3301 tggagagctc atgcccctgg cagccagaat ggggacccat gcaaccatga aaattcaggg 3361 gcgcacagtt ggagggcaaa tgggtatgct cctgacagga tccaacgcca agagtatgga 3421 cctaggcaca acaccaggcg actgcggctg cccctacatc tacaagaggg ggaatgacta 3481 cgtggtcata ggagtccata cggccgctgc ccgtggagga aacactgtca tatgcgccac 3541 ccaggggagt gagggagaag ccacacttga aggaggtgac agtaaaggga catactgtgg 3601 cgcaccaatc ttgggcccag ggagcgctcc gaagctcagt accaagacta agttttggag 3661 atcatccaca acaccactcc cacctggcac ctacgaacca gcctacctcg gtggcaaaga 3721 tcccagagtc aaaggtggcc cttcattgca acaagttatg agggaccagc taaaaccatt 3781 cacagaaccc agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccgt 3841 catcaatgtc cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaagcttg 3901 cgcatccctt gacaaaacca cctccagcgg ccacccgcac cacatgcgga aaaacgattg 3961 ttggaatggg gagtccttca caggaaaatt ggctgatcaa gcctccaagg ccaacctaat 4021 gtttgaagag ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagttggt 4081 aaagaccgat aaagtttatg gtaagatcaa gaagaggctt ctgtggggtt cagatctggc 4141 gaccatgata cggtgcgccc gagcttttgg aggccttatg gatgaactca aggcgcactg 4201 tgtcacactt cctgtcagag ttggtatgaa catgaatgag gatggcccca tcatctttga 4261 gaagcactcc agatatagat atcactatga tgctgattat tcccggtggg actcaacaca 4321 acaaagggat gtgctggcag cagcactaga aatcatggtt aagttctctc cagaaccaca 4381 cctggcccag gtagttgcag aagacctcct ttcccctagc gtaatggatg taggtgactt 4441 tcaaatatca ataagtgagg gtcttccctc tggggtacct tgcacctccc agtggaattc 4501 catcgcccac tggctcctca ctctttgtgc actctctgaa gtcacggacc tgtcccctga 4561 catcattcag gccaactccc ttttctcctt ctatggtgat gatgagattg tgagcacaga 4621 cataaagttg gacccagaga agctgacagc aaaactcaag gagtacgggc tgaaaccaac 4681 ccgccccgac aaaactgaag gaccccttgt tatctctgaa gacctggatg gcctgacatt 4741 cctccggaga actgtgaccc gtgatccagc tggctggttt ggaaaattgg aacaaagttc 4801 aattctcaga caaatgtact ggaccagggg tcctaaccat gaagatccat ttgaaacaat 4861 gataccacat tcccaaagac ccatgcaatt gatgtccttg ctgggcgagg ctgcactcca 4921 cggcccggca ttttatagca aaattagcaa attagtcatt gcagagttga aggaaggtgg 4981 catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct 5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga 5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg 5161 ttatggctct ggagcccgtt gttggtgccg ccattgcggc acctgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag 5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttggga cctgatctaa 5341 atccctacct atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc 5401 aggtaattct cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac 5461 caaattttcc aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag 5521 tagatgttag gcaattagaa cctgtgttga ttcccttacc cgatgttagg aataatttct 5581 atcattataa tcaatcaaat gatcccacca ttaagttgat agcaatgttg tatacaccac 5641 ttagggctaa taatgctggg gatgatgtct tcacagtttc ttgccgagtt ctcacgaggc 5701 catcccccga ttttgatttc atatttctag tgccacccac agttgagtca agaactaaac 5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt 5821 tggaaaagct gttcacgggt cccagcagtg cctttgttgt ccaaccacaa aacggcaggt 5881 gcacgactga tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct 5941 tcagaggaga tgtcacccac atcacaggta gtcgtaacta cacaatgaat ttggcttctc 6001 aaaattggaa caattatgac ccaacagagg aaatcccagc ccctctagga accccagact 6061 ttgtggggaa gattcaaggc gtgctcaccc aaaccacaag gacagatggc tcaacacgcg 6121 gccacaaagc cacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc 6181 aatttgaaac tgacacagac catgattttg aagctaacca aaacacaaag ttcaccccag 6241 tcggtgtcat ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc 6301 caagttactc aggcagaaat actcataatg tgcatctggc ccccgctgta gcccccactt 6361 ttccgggtga gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca 6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag 6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt 6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg 6601 atttggttat tccccccaat ggttatttta ggtttgattc ctgggtcaac cagttctaca 6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagcttt 6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg 6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc 6841 cttccaattt agcagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca 6901 agcacaaatt gaggccacca aaaagttaca acaggaaatg atgaaagtta agcaggcaat 6961 gctcctagag ggtgggttct ctgagacgga tgcagcccgc ggggcaatca atgcccccat 7021 gacaaaagct ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac 7081 atacaatgca ggccgctttt ccacccctca accatcgggg gcattgccag gaagagctaa 7141 tcttagggat gctgcccctg ctcggggctc ctccagtaaa tcttctaact cttctactgc 7201 tacttctgtg tactcaaatc aaactacttc aacgagactt ggttctacag ctggttctgg 7261 taccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaag 7321 taggaatttg tcacctttca tgaggggggc acacaacata tcgtttgtca ccccaccatc 7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagc //