Typing tool
|
Complete norovirus genomes
MZ233536 | GII.4 New Orleans | ||
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GII.P4 New Orleans |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS MZ233536 7568 bp RNA linear VRL 24-MAY-2021 DEFINITION Norovirus GII isolate Hu/US/2012/GII.4 New Orleans[P4 New Orleans]/1115, complete genome. ACCESSION MZ233536 VERSION MZ233536.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7568) AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P., Barclay,L., Vinje,J., Wadford,D.A. and Morales,C. TITLE Direct Submission JOURNAL Submitted (19-MAY-2021) Viral and Rickettsial Disease Laboratory, California Department of Public Health, 850 Marina Bay Parkway, Richmond, CA 94804, 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..7568 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="CA-RGDS-1115" /isolate="Hu/US/2012/GII.4 New Orleans[P4 New Orleans]/1115" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="04-Jan-2012" /note="Amplicon sequencing: first 35 nt does represent primer sequence; genotype: GII.4 New Orleans[P4 New Orleans]" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QVL87728.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGVLSSMAVTFKRALGARP KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS WLCRRMIQRATGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGIMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM SELKQALKNVSIKKCQIVYSGCTYILESDGKGNVKVDRIQSAAVQINNELTGALHHLR SARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVENTEETTSKDGC PKPKDDEEFVISSDDIKTEGKKGKNKAGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVATLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG PGSAPTLSTKTKFWRSSTVSLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHVRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDTVQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVARDPAGWFGKLEQSSILRQMYWTRGP NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE 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="QVL87729.1" /translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIPGSRNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTNGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFETNQNTKFTPVGVIQDG STTPRNEPQQWVLPSYSGRNIHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" gene 6707..7513 /gene="ORF3" CDS 6707..7513 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QVL87730.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRATVPARGSPSTSS NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPTTARTRSWVGDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKQGESRV" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga 61 catcgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc 121 cctcggggcg cggcctaaac agcctccccc gagggaaaaa ccacaaagac ccccacgacc 181 acctactcca gaactggtca aaaatattcc ccccccccca cccaacggag aggatgaaat 241 agtggtttct tatagtgtca aagatggtgt ttccggcttg cctgaccttt ccaccgtcag 301 gcaaccggaa gaatctaaca cggccttcag tgtccctcca ctcaatcaga gggagaatag 361 agatgctaag gagccactta ctggaacaat tctggaaatg tgggacgggg aaatctacca 421 ttatggcctg tatgtggagc gaggtctcgt actaggtgtg cacaaaccac cagctgccat 481 cagcctcgct aaggttgagc tagcaccact ctccttgtat tggagacctg tgtacactcc 541 tcagtacctc atctctccag acactctcaa gaaattatct ggagaaacgt ttccctacac 601 agcctttgat aacaactgtt atgccttttg ttgctgggtc ctggacctaa atgactcgtg 661 gctgtgcagg agaatgatcc agagagctac tggtttcttc aggccctacc aagactggaa 721 taggaaaccc cttcccacta tggatgactc caaaataaag aaggtagcta acatattcct 781 gtgtgctctg tcctcgctgt tcactagacc cataaaagat ataataggga agataaggcc 841 tcttaacatc ctcaacatct tagcctcatg tgattggact tttgcaggca tagtggagtc 901 cctgatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat 961 gattgccccc ttacttggtg actacgagct acaaggacct gaggaccttg cagtggagct 1021 cgtccccgtg gtgatggggg gaattggttt ggtactagga ttcaccaaag agaagattgg 1081 gaaaatgttg tcatctgctg cgtccacctt gagagcttgt aaagaccttg gtgcatatgg 1141 gctagagatc ctaaagttgg ttatgaagtg gttcttcccg aagaaggagg aggcaaatga 1201 gctggctata gtgaggtcta tcgaggatgc agtcctagat ctcgaggcaa ttgaaaacaa 1261 ccatatgacc accttgctca aagacaaaga cagtctggca acctatatga gaacacttga 1321 cctcgaggag gagaaagcca ggaagctctc aaccaagtct gcctcacccg acatcgtggg 1381 cacaatcaac gccctcctgg cgagaatcgc tgccgcacgt tctctggtgc atcgagcgaa 1441 ggaggagctt tccagcagac caagacctgt ggtgttgatg atatcaggca ggccaggaat 1501 agggaagacc cacctcgcta gggaagtggc taagagaatc gcagcctccc ttacaggaga 1561 ccagcgtgtg ggcctcatcc cacgcaatgg cgtcgaccat tgggatgcgt acaaggggga 1621 gagggtcgtc ctatgggatg attatggaat gagcaaccct attcacgacg ccctcaggct 1681 gcaagaactc gctgacactt gccccctcac tctaaactgt gacaggattg aaaacaaagg 1741 aaaggtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagcaccact 1801 ggactatgtc aactttgaag catgctcgag gcgcatcgac ttcctcgtgt atgcagaagc 1861 ccctgaagtc gaaaaggcga agcgtgactt cccaggtcaa cctgacatgt ggaagaacgc 1921 tttcagttct gatttctcac acataaaact agcactggcc ccacagggtg gtttcgacaa 1981 gaacgggaac accccacacg ggaagggcat catgaagact ctcaccactg gctcccttat 2041 tgcccgggca tcagggctac tccatgagag gttagatgaa tttgaactac agggcccagc 2101 tctcaccacc ttcaatttcg atcgcaataa agtgcttgcc tttagacaac ttgctgctga 2161 aaacaaatat ggactgatgg acacaatgag ggtcgggaaa cagctcaagg atgtcagaac 2221 catgtcagaa ctcaaacaag cactcaagaa tgtctcaatc aagaagtgcc aaatagtgta 2281 tagtggttgt acctacatac ttgagtctga tggcaagggc aatgtgaaag ttgacagaat 2341 ccaaagtgcc gccgtgcaga tcaacaatga gctgactggc gccctgcacc atttgaggag 2401 cgccagaatt agatactatg tcaagtgtgt ccaggaggcc ctgtattcca tcattcaaat 2461 tgccggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aaaacctatg 2521 gtccaagcca caagtggaaa acacagagga gaccaccagc aaggacgggt gcccaaaacc 2581 taaggatgat gaggagtttg tcatttcatc cgacgatatc aaaactgagg gcaagaaggg 2641 gaagaacaag gctggccgcg gcaagaagca cacagcattt tcaagcaaag gcctcagtga 2701 tgaagagtac gatgagtaca agaggattag agaagaaagg aatggcaagt actccataga 2761 agagtatctc caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgactga 2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta ggccaacaag 2881 gaaacaacgc aaggaggaaa gagtctctct cggtctggtc acaggctccg aaattaggaa 2941 aagaaaccca gatgacttca aacccaaggg gaaactgtgg gctgacgatg acaggagtgt 3001 ggactacaat gagaaactca gctttgaggc cccaccaagc atctggtcga gaatagtcaa 3061 ctttggttca ggctggggat tctgggtctc ccccagtctg ttcataacat caacccatgt 3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa 3181 gtctggcgag ttctgtcgct tgagattccc aaaaccaatc aggactgatg tgacgggcat 3241 gatcttagaa gaaggcgcac ctgagggcac cgtggccaca ctactcatca aaaggtccac 3301 tggggaactc atgcccctag cagctaggat ggggacccat gcgaccatga agatccaagg 3361 gcgcactgtt ggaggccaga tgggcatgct tctgacggga tccaacgcca agagtatgga 3421 cctgggtact acaccaggtg attgtggctg cccctatatc tacaagagag gtaatgacta 3481 tgtggtcatt ggagtccaca cggctgccgc acgtggggga aacactgtca tatgtgccac 3541 ccaggggagt gagggagagg ctacacttga aggtggtgac aacaagggga catactgtgg 3601 tgcaccaatc ctaggcccag ggagtgcccc aacacttagc accaagacca aattctggag 3661 atcgtccaca gtatcactcc cacctggcac ctatgagcca gcctatcttg gtggcaagga 3721 ccctagagtc aagggtggcc cttcactgca gcaagtcatg agggaacagt tgaagccatt 3781 cacagagcca aggggcaagc caccaaaacc aagtgtatta gaagctgcca agaagaccat 3841 catcaatgtc cttgagcaaa caattgatcc acctgagaag tggtcgttcg cacaggcttg 3901 cgcgtccctt gacaagacca cttccagtgg tcatccgcac cacgtgcgga aaaacgactg 3961 ctggaacggg gagtccttca caggcaagct agcggaccag gcttccaagg ccaacctgat 4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagct gcgctcaagg atgagttagt 4081 taaaactgac aaaatttatg gtaagatcaa gaagaggctc ctctggggct cggacctggc 4141 gaccatgatc cggtgtgctc gagcattcgg aggcctgatg gatgagctca aagcacactg 4201 tgtcacgctt cccattagag ttggcatgaa tatgaatgag gacggcccca tcatcttcga 4261 gaggcattcc aggtacacat atcactatga tgctgattac tctcgatggg attcaacaca 4321 acagagggcc gtgttggcag cagctctaga aatcatggtt aaattctccc cagaaccaca 4381 cttggctcag gtagtcgcgg aagaccttct ttctcctagc gtggtggacg tgggcgactt 4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc 4501 catcgcccac tggcttctca ctctctgtgc gctctctgaa gtcacaaacc tgtcccctga 4561 taccgtacag gctaactccc tcttctcttt ttatggtgat gatgaaattg ttagcacaga 4621 cataaaattg gacccagaga aattgacagc aaagctcaga gagtatgggt taaaaccaac 4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gatctgaatg gcctaacttt 4741 cctgcggaga actgtggccc gcgacccagc tggttggttt ggaaaactgg agcagagttc 4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagacccat ctgaaacaat 4861 gattccacac tcccaaagac ccatacaatt gatgtcccta ctgggggagg ccgctctcca 4921 cggcccagcc ttttacagca aaatcagcaa attggtcatt gcagagctaa aagaaggtgg 4981 catggatttt tacgtgccca gacaagagcc aatgttcagg tggatgagat tctcagatct 5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga 5101 atgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg 5161 ttatggcttt ggagcccgta gttggtgccg ccattgcggc acctgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag 5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatctga 5341 atccctacct ttcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc 5401 aggtaatcct cgcggggaac gcgttcaccg ccgggaaaat catatttgca gcagtcccac 5461 caaatttccc aactgaaggt ttgagcccca gccaggtcac tatgttcccc catataatag 5521 tagatgttag gcaattggaa cctgtgttga tccccttacc cgatgttagg aataatttct 5581 atcattataa tcaatcaaat gaccccacta tcaaattgat agcgatgttg tacacaccgc 5641 ttagggctaa taatgccggg gacgatgtct tcacagtctc ttgtcgagtt ctcacgagac 5701 catcccccga ttttgatttc atatttttgg tgccacccac agttgaatca agaactaaac 5761 cattctctgt cccagtctta actgttgagg agatgaccaa ttcaaggttc cccattcctt 5821 tggaaaagtt gttcacgggc cccagcagtg cctttgtcgt tcaaccacaa aatggcaggt 5881 gcacgactga tggcgtgctc ctaggtacta cccaactgtc ccctgtcaac atctgcacct 5941 tcagaggtga tgtcacccac attccaggca gtcgtaacta cacaatgaat ttggcctccc 6001 aaaattggaa cagttacgat ccaacagaag aaatcccagc ccctctagga actccagatt 6061 ttgtggggaa gattcaagga gtgctcactc aaaccacaag gacaaatggc tcgacccgcg 6121 gccacaaagc tacagtgtac actgggagcg ccgacttttc tccaaaactg ggtagagttc 6181 aatttgccac tgacacggac aatgattttg aaactaacca aaacacaaag ttcaccccag 6241 tcggtgttat ccaggatggt agcaccaccc cccgaaatga accccaacaa tgggtgctcc 6301 caagttactc aggcagaaat attcataatg tgcacctggc ccccgctgta gcccccactt 6361 tcccgggcga gcagctcctc ttcttcagat ctactatgcc cggatgcagc gggtacccca 6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtatttctac caagaagcag 6481 ccccagcaca atctgatgtg gctcttttaa gatttgtgaa tccagacaca ggtagggttt 6541 tgtttgagtg caagcttcat aaatcaggct acgttacagt ggctcacact ggccagcatg 6601 atttggttat cccccccaat ggctatttta gatttgattc ctgggtcaac cagttctaca 6661 cacttgcccc catgggaaat gggacggggc gtagacgtgc attataatgg ctggagcttt 6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctaa tcaatgctgg 6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcttc 6841 cttccaattt agtagtaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca 6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg atgagagtta aacaagcaat 6961 gctcctagag ggtggattct ctgagacaga tgcagcccgt ggggcaatca acgcccccat 7021 gacaaaaact ttggactgga gcgggacgag gtactgggct cccgatgcta ggactacaac 7081 atataatgca ggccgctttt ccacccccca accctcgggg gcactgccag gaagagctaa 7141 tcttagggct accgtccccg cccggggttc ccccagcacg tcttctaact cttctattgc 7201 tacttctgtg tattcaaatc aaaccacctc aacgagactt ggttctacag ctggttctgg 7261 taccagtgtc tcgagcctcc cgacaactgc aaggactagg agttgggttg gggatcaaaa 7321 taggaatttg tcacctttta tgaggggggc ccacaacatc tcgtttgtca ccccaccatc 7381 tagcagatcc tctagccaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcaagggga 7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt cttttcttta gtgtctttta 7561 aaaaaaaa //