Typing tool
|
Complete norovirus genomes
OL898511 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS OL898511 7560 bp RNA linear VRL 22-DEC-2021 DEFINITION Norovirus GII isolate Hu/US/2015/GII.4 Sydney[P31]/Cincinnati10188, complete genome. ACCESSION OL898511 VERSION OL898511.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7560) AUTHORS Montmayeur,A.M., Selvarangan,R., Chhabra,P. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (17-DEC-2021) Viral Gastroenteritis Branch, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA 30329, USA COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. v. 11.1.2; SPAdes v. v. 3.6 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7560 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/US/2015/GII.4 Sydney[P31]/Cincinnati10188" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="28-Mar-2015" /note="genotype: GII.4 Sydney[P31]" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="UHB38528.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVTGLPELTTVRQPE ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS LAKVELVPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTM PDLKQALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSASVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANNDGC LKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIRDERNG KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCT SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE 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="UHB38529.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD 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="UHB38530.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS NSSTATSVYSNQTTSTRLGSSAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga 61 catcgcaaaa tcttcaagtg acggtgtgtt ttccaacatg gctgtcactt ttaagcgggc 121 cctcggggcg cggcctaaac agccgccccc gaaggaaata ccacccagac ccccgcgacc 181 acccacacca gaattggtca aaaagatccc tcctccccca cccaacgggg aggatgaact 241 agtggtctct tacagcgcca aagatggcgt taccggactg cctgagctca ccactgtcag 301 acaaccggaa gaaaccaaca cggcgttcag tgtccccccg ctcaatcaaa gggagagcag 361 ggacgccaaa gagccactaa ctggaacaat cattgaaatg tgggatggag aaatctacca 421 ttacggcctg tacgtggaac gaggtcttat acttggtgtg cacaagccac cggcagccat 481 tagccttgcc aaggtcgagc tagtaccgct ctctttgttt tggagacctg tgtacacccc 541 ccagtatctc atctctccag acactcttag gagattacat ggagagtcat tcccctacac 601 tgcatttgac aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcatg 661 gctaagcagg agaatgattc agagaacaac aggtttcttc aggccgtacc aggattggaa 721 caggaaaccc ctccccacta tggacgattc caaattaaag aaggtagcca atatattctt 781 gtgtactttg tcttcactat tcaccagacc cattaaggac ataataggga agttgaagcc 841 tcttaacatt cttaacattc tggctacatg tgattggacc ttcgcaggca tagtggaatc 901 cttaatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat 961 gatcgccccc ttgctaggtg attatgaact gcaaggacct gaggaccttg cagtggaact 1021 ggtcccaata gtgatggggg ggataggttt ggtgctagga ttcaccaaag agaaaatcgg 1081 aaagatgcta tcatccgctg catccacttt aagagcctgt aaagaccttg gtgcatacgg 1141 actggaaatc ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga 1201 actggctatg gtgagatcca tcgaggatgc agtactagac ctcgaggcaa ttgaaaacaa 1261 ccacatgacc accctactta aagacaaaga cagcttggca acctacatga gaacccttga 1321 ccttgaggag gagaaagcca gaaagctctc aaccaaatct gcttcacccg atatagtggg 1381 cacaatcaac tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcgaa 1441 agaagagctc tccagcaggc cgagacctgt cgttgtgatg atatcgggaa gaccagggat 1501 agggaaaact caccttgcca gggagctggc caagaagatt gcggcctccc tcacagggga 1561 ccagcgtgtg ggtcttatcc cacgcaatgg tgtcgaccac tgggacgcat acaagggcga 1621 aagagttgtc ctatgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt 1681 gcaggagctt gctgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg 1741 gaaagtcttt gacagtgatg ccataattat caccactaat ctggccaacc cagcaccact 1801 ggactatgtc aactttgagg cgtgctcgag acgcattgat ttcctcgtgt acgcagaagc 1861 ccctgaggtg gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc 1921 tttcagtcct gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa 1981 gaacggcaac accccgcatg gaaaaggggt catgaagacc ctcactactg gctccctcat 2041 cgcccgagca tcagggttac tccatgagag gctagatgaa tatgaactgc aaggcccagc 2101 cctcaccact ttcaactttg atcgcaacaa gatacttgct tttagacagc ttgctgctga 2161 aaacaagtat gggctgatgg acacaatgag agttggaaaa cagctcaagg atgtcaagac 2221 catgccagac ctcaaacaag cactcaagaa catcgcgatc aagaagtgcc agatagtgta 2281 caatggtggc acctacacac ttgaggctga tggtaagggt agtgtgaaag ttgacaaagt 2341 gcaaagtgcc tctgtgcaga ccaacaatga actagccggt gccctacacc acctaaggtg 2401 cgctagaatc agatactatg ttaagtgcgt ccaggaggca ttgtattcca tcatccaaat 2461 cgctggggct gcatttgtca ccacgcgcat cgctaagcgc atgaatatac agaatctttg 2521 gtccaagcca caggtggaag acacagagga gatggccaac aatgatggtt gcctgaaacc 2581 caaagatgat gaagagtttg tcgtctcatc cgacgacatc aaaactgagg gcaagaaagg 2641 gaagaacaag tccggccgtg gcaagaagca cacagccttt tcaagcaaag ggctcagtga 2701 tgaggagtat gatgagtaca agagaatcag agatgaaagg aatggtaagt actccataga 2761 agagtacctt caggacagag acaggtacta cgaggaggtg gccattgcca gggcaaccga 2821 agaggacttc tgtgaagaag aagaggccaa aatccggcag agaattttca gaccaacaag 2881 gaaacaacgc aaagaagaga gggcctctct cggcctggtc acaggctctg aaatcaggaa 2941 gagaaaccca gaagacttca aacccaaggg aaagctgtgg gctgatgatg acagaagtgt 3001 tgactacaat gagaaactca actttgaggc cccaccaagc atctggtcgc ggatagttaa 3061 ctttggttca ggctggggct tctgggtctc ccccagtctg tttataacat caacccatgt 3121 cataccccaa ggtgcaaaag agttcttcgg agtccctatc aagcaaatcc agatacacaa 3181 atcaggtgaa ttctgccggt tgagattccc aaagccaatc agaactgatg tgacgggcat 3241 gattctagaa gaaggtgcgc ccgaggggac cgtggccaca ctgctcatca agagaccaac 3301 tggagagctc atgcctctgg cagccagaat gggtacccat gcaaccatga aaattcaggg 3361 gcgcacagtt ggggggcaaa tgggtatgct cttgacggga tccaacgcca agagtatgga 3421 cctaggcaca acgccaggcg actgcggctg cccctacatc tacaagaggg ggaatgacta 3481 cgtggtcata ggggtccata cggccgctgc ccgtggagga aacactgtca tatgtgccac 3541 ccaggggagt gagggagaag ccacacttga agggggtgat agtaaaggga catactgtgg 3601 cgcaccaatc ttgggcccag ggagcgctcc gaagctcagt accaagacta agttttggag 3661 atcatccaca acaccgctcc cacctggcac ctacgaacca gcctacctcg gtggcaaaga 3721 ccctagagtc aaaggtggcc cttcattgca acaagttatg agggaccaac tgaagccatt 3781 cacagaaccc agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat 3841 catcaatgtc cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaagcttg 3901 cgcatccctt gacaaaacca cctccagcgg ccacccgcac cacatgcgga aaaacgactg 3961 ttggaatggg gagtccttca caggaaaatt ggctgatcaa gcctccaagg ccaacctaat 4021 gtttgaagaa ggaaagaata tgactccagt ctacacaggt gcacttaaag atgagttggt 4081 aaagaccgat aaagtttatg gtaaggtcaa gaagagactt ctgtggggtt cagatctggc 4141 aaccatgata cggtgcgccc gagcttttgg aggccttatg gatgagctca aggcacactg 4201 tgtcacactt cctgtcagag ttggtatgaa catgaatgag gatggtccca tcatcttcga 4261 gaagcactcc agatataggt atcactatga tgctgattac tcccggtggg actcaacaca 4321 acaaagggat gtgctagcag cagcactaga aatcatggtt aagttctctc cagaaccaca 4381 cctggcccag atagttgcag aagacctcct ttcccctagc gtaatggatg taggtgactt 4441 tcaaatatca ataagtgagg gtctcccctc tggggtacct tgtacctccc agtggaattc 4501 catcgcccac tggctcctca ctctgtgtgc actctctgaa gtcacggacc tgtcccctga 4561 catcattcag gccaactccc ttttctcctt ctatggtgat gatgagattg taagcacaga 4621 cataaagttg gacccagaga agctgacagc aaaactcaag gagtacgggc tgaaaccaac 4681 ccgccccgac aaaactgaag gaccccttgt catctctgaa gacctggatg gcctgacatt 4741 cctccggaga actgtgaccc gtgatccagc tggctggttt ggaaaattgg aacaaagctc 4801 aattctcagg caaatgtact ggaccagggg tcccaaccat gaagatccat ttgaaacaat 4861 gataccacac tctcaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca 4921 cggcccggca ttctatagca 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 agaaataatt ttgtacaagc ccctggtgga gagtttacag 5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttgggc cctgatctaa 5341 atccctacct atcccatttg gccagaatgt acaatggtta tgcaggtggc tttgaagtgc 5401 aggtaattct cgcggggaat gcgttcaccg ccgggaaggt catatttgca gcagtcccac 5461 caaattttcc aactgaaggc ttgagcccca gtcaggtcac tatgttcccc catatagtag 5521 tagatgttag gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct 5581 atcattacaa tcaatcaaat gaccctacca ttaaattgat agcaatgttg tatacaccac 5641 ttagggctaa taatgctggg gatgatgtct tcacagtttc ttgcagagtt ctcacgagac 5701 catcccccga ttttgatttc atatttctag tgccacccac agttgagtca agaactaaac 5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt 5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt ccaaccacaa aacggtaggt 5881 gcacgactga tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct 5941 tcagaggaga tgtcacccat atcacaggta gtcgtaacta cacaatgaat ttggcttctc 6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctagga actccagatt 6061 ttgtggggaa gattcaaggc atgctcaccc aaaccacaag gacagatggc tcaacacgcg 6121 gccacaaagc tacagtgtat actgggagcg ccgactttgc tccaaaactg ggtagagttc 6181 aatttgaaac tgacacagac catgattttg aagctaacca aaacacaaag ttcaccccag 6241 ttggtgtcat ccaagatggt agcaccaccc accgaaacga accccaacag tgggtgctcc 6301 caagttattc aggcagaaat actcctaatg tgcatttggc ccccgctgtg gcccccactt 6361 ttccgggtga gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca 6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag 6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa cccagacaca ggtagggttt 6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg 6601 atttggttat cccccccaat ggttatttta ggtttgattc ctgggtaaac cagttttaca 6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgc actataatgg ctggagcttt 6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg 6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc 6841 cttccaattt agcagcaatc tacaacaagc ttcctttcaa catgacaaag agatgctcca 6901 agcacaaatt gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcaat 6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgcccctat 7021 gacaaaagct ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac 7081 atacaatgca ggtcgctttt ccacccctca accatcgggg gcactgccag gaagagctaa 7141 tcttagggat gctgtccctg ctcggggttc ctccagcaag tcttctaatt cttctactgc 7201 tacttctgtg tactcaaatc aaaccacttc aacgagactt ggttcttcag ctggttctgg 7261 taccagtgtc tcgagcttcc cgtcaactgc aaggactagg agctgggttg aggatcaaag 7321 taggaatttg tcacctttta tgaggggggc ccacaacata tcgtttgtca ccccaccatc 7381 tagtagatcc tctagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagcc actcttcgct cacattcgta agcgagggga 7501 gtcacgggcg taatgtgaaa agacaaaatt gattatcttt ctttttcttt agtgtctttt //