Typing tool
|
Complete norovirus genomes
OL898507 | GII.2 | ||
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GII.P16 |
ORF1: 5..5104 ORF2: 5085..6713 ORF3: 6713..7492LOCUS OL898507 7536 bp RNA linear VRL 22-DEC-2021 DEFINITION Norovirus GII isolate Hu/US/2017/GII.2[P16]/Kansas0832, complete genome. ACCESSION OL898507 VERSION OL898507.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7536) 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..7536 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/US/2017/GII.2[P16]/Kansas0832" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="06-Feb-2017" /note="genotype: GII.2[P16]" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="UHB38516.1" /translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGSILEMWDGEIYHYGLYVEKGLVLGVHKPPAA VSMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESKTEEE APKSGDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPYHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIIGEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 5..1000 /gene="ORF1" /product="p48" mat_peptide 1001..2098 /gene="ORF1" /product="NTPase" mat_peptide 2099..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..6713 /gene="ORF2" CDS 5085..6713 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="UHB38517.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6713..7492 /gene="ORF3" CDS 6713..7492 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="UHB38518.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT GSSHGTVSSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga 61 caaagaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc 121 cctcggggct aggcccaaac agcctgcccc gagagacaaa ccacaaaagc ccccaagacc 181 accaactccc gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaaga 241 agaaccagtc attaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac 301 agtcccccaa ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga 361 aaacagggag gccaaggaac cgctaacagg gtcaatatta gagatgtggg atggagagat 421 ataccactat ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc 481 agccgtaagc atggcaagag tggagctgac gccgctgtca ttgtactggc gtgtggtgta 541 cactccccaa tacctcatct cccctgaaac tctcaggaga ctcaacggag aggcattccc 601 ttacaccgcc tttgacaata actgctatgc cttttgctgc tgggtgttag acctcaatga 661 ctcatggctt agcaggagga tggtgcaaag aacaacgggc ttcttcagac cttaccaaga 721 gtggaacaga aaacccctgc ccaccatgga tgactccaaa attaagaagg tagcaaatat 781 attcctatgt tcattgtcca cattattcac cagacccata aaagacctca taggaaaaat 841 taaaccatta aatatattga atatcctggc aacgtgtgac tggacttttg ccggaatagt 901 ggagtctctg atattacttg ctgaactctt cggagttttc tggacacccc cagatgtgtc 961 tgctatgatc gctcccttac tcggggacta cgagttgcag gggccagaag acctcgccgt 1021 tgaactcgta cctgtggtaa tgggggggat tggtttggtg ttgggattca ccaaagagaa 1081 aattggcaaa atgttgtcct cagcagcatc aacactcagg gcttgcaaag atcttggtgc 1141 ctatggctta gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggc 1201 caatgagtta gccatggtga gggccataga ggatgctgta ctagatcttg aggcaataga 1261 aaataaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac 1321 actggacatg gaggaggaga aagccaggag gttgtccaca aaatctgcat cccctgacat 1381 agttgggaca atcaacgccc tgctggctcg aatagcagcg gccaggtcat tagtccacag 1441 ggccaaggaa gagctatcta gcaggataag accagtagtt gttatgatat ctggcaaacc 1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcgt ccactctcac 1561 aggggatcaa agagtcggac tcataccaag aaacggtgtg gaccattggg atgcatacaa 1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct 1681 tcgcatacaa gaattggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa 1741 caagggaaaa gtttttgaca gtgaggtcat aataattaca acaaaccttg ccaatccagc 1801 cccacttgat tatgttaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc 1861 tgatgcacca gaagtagaaa aggcaaaacg ggactttcct ggtcagccag atatgtggaa 1921 ggacgccttc aagccggact tttcacacat caagctacag cttgcacccc agggcggctt 1981 tgacaagaat ggcaacaccc cacatgggaa aggagtgatg aagaccctca ctaccggttc 2041 tctgattgcc cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg 2101 tcccacaatc accaccttca atttcgaccg gaacagaatc acagcattca gacaattggc 2161 tgcagaaaac aagtatggat tggtggatac catgagagtt ggcaatcaac taaaaggagt 2221 gaaaaccatg gaggaactta aacaagcaat caggaatgtg accatcaaga ggtgccggat 2281 catctacggt ggctccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga 2341 aaaggtcaag aacacctctg tacagaccaa caacgagttg gctggggccc tgcaccatct 2401 caaacacgcc cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat 2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgtatga acatacaaga 2521 actctggtcg aagccacaat tagatcaaaa tgaatcaaag actgaggaag aggcccccaa 2581 gtcaggagat gacgagttca tcatatcttc taaggacatc aaggaggaag gaaagaaggg 2641 caaaaacaaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga 2701 tgaggagtat gacgagtaca agaggataag agaagagaga aatgggaagt actccataga 2761 ggagtatctt caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga 2821 agaagacttc tgtgaagagg aggagatcaa aatccgtcag agaattttcc gtcccaccag 2881 gaaacaaaga aaggaagaga gggccacatt agggctagta acaggttcag aaatcagaaa 2941 aagaaaccct gatgacttca aacccaaagg aaagctgtgg gccgatgaca acaggagtgt 3001 tgactacaat gagaaactgg actttgaggc ccccccaagc atatggtcta ggattgtgag 3061 ctttggttct ggctggggct tctgggtgtc accaagcctt ttcataacgt caactcatgt 3121 aatccccgca ggcataacag aagcatttgg agtccccatc aaacaaattc agatccacaa 3181 atcaggtgaa ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacagggat 3241 gatcttggaa gaaggtgcgc ctgagggcac cgtggcaact gtgctcatca aacgccccac 3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga aaattcaagg 3361 ccgcatggtt ggcggacaga tgggtatgtt gctcactgga tcaaatgcta aaggaatgga 3421 tttgggaaca actcctggtg actgtggctg tccttacatc tataaaaggg gcaatgacta 3481 tatagtcatt ggggtgcaca ctgcagcagc ccgtggtgga aacactgtca tctgtgccac 3541 acagggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa cgtactgtgg 3601 ggcacccatt ctaggccctg ggggtgcacc aaaattgagc accaaaacca aattttggag 3661 gtcatcgaac acgccccttc caccagggac atatgaacct gcctacctcg gtggccgtga 3721 tccgcgtgtt aagggtgggc cctccctgca gcaggtaatg agagaccagt tgaagccatt 3781 cactgaaccc aggggcaaac ctccaagacc aagtgtattg gaagcagcca aacaaaccat 3841 catcaatgtc ctcgaacaaa ccctggaccc tccacaaaaa tggacatacg cacaggcgtg 3901 tgcctcactt gacaaaacca cctccagcgg gcatccctat cacgtccgaa agaatgaatt 3961 ctggaatggt gagaccttca ctggtaaatt ggcagaccaa gcatcaaaag caaacctaat 4021 gtttgaggaa gggaaacaca tgacaccagt atacacagca gcactcaagg acgagctagt 4081 caagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc 4141 caccatgatc cggtgcgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg 4201 catatcactc ccagtccgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga 4261 gaaacattcc agatataaat atcactatga tgcagactac tctcgttggg attcaacaca 4321 acagagggca gtactagcag cagccttgga aattatggtc agattctctg cagaaccaca 4381 attggcacaa atagtcgctg aggatctgct ggcccctagt gtagtagatg taggagattt 4441 taaaatcaca ataaatgaag ggctcccctc tggtgtgcca tgcacttctc aatggaactc 4501 catcgcacac tggctgctaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcccctga 4561 cattatacag gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga 4621 cataaaattg gaccctgaac agttaaccgc caaattgaag gagtacggcc tgaaaccaac 4681 ccgcccagac aaaaccgagg gacccctgat tatcggtgaa gatttgaacg gactcacttt 4741 cctccgaagg acagtgactc gtgacccagc tggctggttt ggaaaactgg accaaagctc 4801 aattttgagg cagatgtact ggactagagg accaaatcat gaagacccca atgagacaat 4861 gataccccat tctcaaagac ccatacagct catggcactg cttggtgaag cctctcttca 4921 cggaccctct ttctacagta aaatcagtaa attggtcata actgagctca aagaaggtgg 4981 gatggacttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt 5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga 5101 atgacgccgc tccatctact gatggtgcag ccggcctcgt gccagaaagt aataatgagg 5161 tcatggctct tgaacccgtg gctggtgccg ccttggcagc cccggtcact ggtcaaacaa 5221 atattataga cccttggatt agagcaaatt ttgtccaggc ccccaatggt gaatttacag 5281 tttctccccg taatgcccct ggtgaagtgc tactgaatct agagttgggt ccagaattaa 5341 atccttatct ggcacattta gcaagaatgt acaatgggta tgccggtggg atggaggtgc 5401 aggtcatgtt ggctgggaac gcgttcacag ccggcaagtt ggtcttcgcc gccgtgccac 5461 ctcacttccc agttgaaaac cttagcccac agcaaattac catgttccct catgtgatca 5521 tagatgtgag aaccttggaa cctgttctgt taccactccc tgatgttagg aataatttct 5581 tccattataa tcagaaagat gatcccaaga tgagaattgt ggctatgctt tatacccccc 5641 tcaggtctaa tggttcaggt gatgatgtgt ttacagtctc ctgcagagtg ttgactagac 5701 cttcccctga ctttgacttc acatacctgg tgccaccaac agtggagtct aaaacaaaac 5761 cattcaccct cccaatcctt acacttgggg aactttccaa ttccaggttc ccagtgtcca 5821 tagaccagat gtataccagc cctaatgaag ttatatcagt gcagtgtcaa aatggtaggt 5881 gcacactgga cggggagctc caggggacaa cacaactcca agtcagtggc atttgtgctt 5941 tcaaaggtga agtgaccgcc cacttacatg acaatgatca cctatataat gttaccatca 6001 caaacttgaa tgggtcccct tttgatccct ccgaggatat ccctgcccct ctgggtgtgc 6061 ctgacttcca gggaagggtt tttggtatca tctcccaaag ggacaaacac aatagtcctg 6121 ggcataatga accagcaaac aggggacacg acgctgtggt ccccacttac acagcacagt 6181 acactccaaa actgggacaa attcaaattg gcacatggca gactgacgac cttacagtca 6241 accaaccagt caaattcacc ccagttggac tcaatgacac tgaacatttt aaccaatggg 6301 tggtccccag gtatgctggt gccctaaacc tcaatacaaa ccttgcccct tctgttgctc 6361 cagtatttcc aggagagcgc ctgctcttct tcagatcata cattcccctc aagggcggtt 6421 atggaaaccc agccattgat tgcctactac cacaagagtg ggtgcaacac ttctatcagg 6481 aagcagcccc ttcaatgagt gaggtggccc tcgtcagata catcaacccg gacactggtc 6541 gggcactgtt tgaggccaag ctccatagag ctggtttcat gacagtctcg agcaacacca 6601 gtgccccggt ggttgtgcct gccaacggat acttcagatt tgattcttgg gtgaaccaat 6661 tctattctct cgcccccatg ggaactggga atgggcgtag aagggttcaa taatggctgg 6721 agcttttgta gctggtcttg caggggacgt gctcagcaat gggcttagtt cattaatcaa 6781 tgcaggtgct aatgcaataa atcagagggc agaatttgat tttaatcaga aattgcagca 6841 aaattctttt aatcatgata aggagatgtt gcaggctcag attcaggcaa ctaagcagct 6901 gcaggcagac atgatggcta taaaacaagg ggtcttgacc gctggcggct tttcccctgc 6961 tgatgcagcc agaggtgctg tgaacgcgcc catgacacaa gcgctggatt ggaatggtac 7021 aaggtattgg gcaccaaact ccatgaggac cacatcttat tctggaaaat tcacatcaac 7081 cgccccagtg aggcaggccg acttccagca cacccaaagc cggccttcga gtggctcctc 7141 tgtgtcttcc tttgccactc agtcttcaag gccaactctg accacaacca ctggttcctc 7201 acatggcaca gtctcatcaa attcaactcg cagcacaagc ctctcccaat caacggtctc 7261 cagagctaca tctaggactg gtgagtgggt tagagatcaa aatagaaatt tggaacccta 7321 catgcatggt gccttacaga cagcctttgt caccccacct tccagcaggg cgtccgacgg 7381 gacagtctca accgtcccga aaggtgtttt ggactcctgg acacctgcgt ttaacacccg 7441 caggcagccg ctttttgcac acctccgtaa gaggggggag tcacaagctt agtgaaaagg 7501 tgaaaattta tttaggatga attgatttta cctttt //