Typing tool
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Complete norovirus genomes
KM198568 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 53..5071 ORF2: 5052..6674 ORF3: 6674..7304LOCUS KM198568 7304 bp RNA linear VRL 13-NOV-2014 DEFINITION Norovirus Hu/GII/C2H-62/2011/VNM nonstructural polyprotein and capsid protein VP1 genes, complete cds; and capsid protein VP2 gene, partial cds. ACCESSION KM198568 VERSION KM198568.1 KEYWORDS . SOURCE Norovirus Hu/GII/C2H-62/2011/VNM ORGANISM Norovirus Hu/GII/C2H-62/2011/VNM Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7304) AUTHORS Cotten,M., Petrova,V., Phan,M.V., Rabaa,M.A., Watson,S.J., Ong,S.H., Kellam,P. and Baker,S. TITLE Deep sequencing of norovirus genomes defines evolutionary patterns in an urban tropical setting JOURNAL J. Virol. 88 (19), 11056-11069 (2014) PUBMED 25056894 REFERENCE 2 (bases 1 to 7304) AUTHORS Cotten,M.L., Petrova,V., Phan,M.V.T., Rabaa,M.A., Watson,S.J., Kellam,P. and Baker,S. TITLE Direct Submission JOURNAL Submitted (13-JUL-2014) Virus Genomics, The Wellcome Trust Sanger Institute, Hinxton CB10 1SA, United Kingdom COMMENT ##Assembly-Data-START## Assembly Method :: SPAdes v. 2.4.0 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7304 /organism="Norovirus Hu/GII/C2H-62/2011/VNM" /mol_type="genomic RNA" /isolate="Hu/GII/C2H-62/2011/VNM" /host="Homo sapiens" /db_xref="taxon:1527025" /country="Viet Nam" /collection_date="14-Dec-2011" /note="genotype: GII" CDS 53..5071 /note="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="AII02832.1" /translation="MFSSMAVTFKRALGARPKQPPPREIPQRPPRPPTPELVKKVPPP PPNGEDEVVVSYSAKDGISGLPELSTVRQPEETNTAFSVPPLNQRENRDAKEPLTGTI LEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSLFWRPVYTPQYLISPDT LKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPT TDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLRPLNIINILASCDWTFAGIVESLILL AELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVELVPVVMGGIGLVLGFTKEKIGKM LSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENN HMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLARIAAARSLVHR AKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGDQRVGLIPRNGVDHWDA YKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDVIIITTNL ANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSSDFSHIKLAL APQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEFELQGPALTTFNFDRNK VLAFRQLAAENKYGLMDTMRVGRQLKDVKTMPELKQALKSISIKKCQIVYSGCTYTLE SDGKGNVKVDRVQSTSVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFV TTRIIKRVNIQNLWSKPQVENIEEATNKDGCPKPKDDEEFVITSDDIKTEGKKGKNKT GRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDKYYEEVAIARATEED FCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPDDFKPKGKLWADDDRSV DYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQV HKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRSTGELMPLAARMGTHATM KIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGN TVICATQGGEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTAPLPPGTYE PAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLEAAKKTIINVLEQTIDP PEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKSMT PVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPIR VGMNMNEDGPVIFEKHSRYRYHYDADYSRWDSTQQRAVLAAALEIMVKFSSEPHLAQV VAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTNLSPDII QANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTF LRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSESMIPHSQRPIQLMSLLGEAA LHGPTFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNE DGVE" CDS 5052..6674 /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="AII02833.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFIVQPQNGRCTTDGVLLGTT QLSPVNICTFRGGVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFEAHQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRDVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6674..>7304 /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="AII02834.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIDFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKVLDWSGTRYWAPDTRTTTYNAGRFSTPQPSGSLPGRTNPRTPTPARASSSTSS NASTVASIYSNQTVSTRLGSTAGSGTNVSSLPSTARTKSWVEDQNRNLSP" ORIGIN 1 tgccgctgtt gctaacagca acaacgacac cgcaaaatct tcaagtgaca aaatgttttc 61 tagcatggct gtcactttta aacgagccct cggggcgcgg cctaaacagc ctcccccgag 121 ggaaataccg caaagacccc cacgaccacc tactccagaa ctggtcaaaa aggtccctcc 181 tcccccgccc aacggagagg atgaagtggt ggtttcttat agtgccaaag atggcatttc 241 tggtctacct gagctttcca ccgtcagaca accagaagaa accaatacgg cctttagtgt 301 ccccccactc aatcagaggg agaataggga tgctaaggaa ccactgactg ggacaattct 361 ggaaatgtgg gatggagaaa tctatcatta tggcctgtat gttgaacgag gtcttgtgct 421 gggtgtacac aaaccaccag ctgccattag cctcgccaag gtcgaactaa caccactctc 481 cttgttctgg agacctgtgt acaccccaca gtacctcatc tctccagaca ctctcaagaa 541 attacacgga gaaacatttc cctacacagc ctttgacaac aactgctatg ccttttgttg 601 ctgggtcctg gatctaaacg actcgtggct gagtaggaga atgatccaga gaacaactgg 661 cttcttcaga ccctaccaag attggaatag gaaacccctc cctactacgg atgattccaa 721 attaaagaag gtagctaaca tattcctgtg caccctgtct tcgctattca ccaggcccat 781 aaaagacata ataggaaagt taaggcctct caacatcatc aacatcctag cttcatgtga 841 ctggactttc gcaggcatcg tggaatcctt gatactcttg gcagagctct ttggagtctt 901 ctggacaccc ccagatgtgt ctgcgatgat tgccccctta ctcggtgatt tcgagttaca 961 aggacctgag gaccttgtag tggagctcgt ccctgtggta atggggggaa ttggtttggt 1021 gctgggattc accaaagaga agattggaaa aatgttgtca tctgctgcgt ccaccttgag 1081 agcttgtaaa gatctcggtg catatgggct agagatccta aagctagtca tgaagtggtt 1141 cttcccgaag aaagaggagg caaatgaact ggctatggtg agatccatcg aggatgcagt 1201 actggacctt gaggcaattg aaaacaacca catgaccacc ttgctcaaag ataaagacag 1261 cctggcaacc tacatgagaa cccttgacct cgaggaagag aaagccagaa aactctcaac 1321 caagtccgct tcacccgaca tcgtgggcac aatcaacgcc cttctggcga gaatcgccgc 1381 tgcacgctcc ctggtgcacc gagcgaagga ggagctttcc agcagaccaa gacctgtggt 1441 cttgatgata tcaggtagac cagggatagg gaagacccac cttgctaggg aagtggctaa 1501 gagaatcgca gcctccctca caggagacca gcgcgtaggc ctcatcccac gcaatggcgt 1561 cgatcactgg gatgcgtaca aaggggagag ggtcgtccta tgggacgact atggaatgag 1621 caatcccatc cacgacgccc tcaggctgca agaactcgcc gacacttgcc ccctcactct 1681 aaattgtgac aggattgaga ataaaggaaa ggtctttgac agtgatgtca tcattatcac 1741 tactaatctg gccaacccag caccactgga ctatgtcaac tttgaagcgt gctcgaggcg 1801 catcgatttc ctcgtgtacg cagaagcccc cgaggtcgaa aaggcgaagc gtgacttccc 1861 gggccaacct gacatgtgga aaaacgcttt tagttctgat ttctcacaca taaaactggc 1921 actggctcca caaggtggct tcgataagaa cgggaacacc ccacatggga agggcgtcat 1981 gaagactctc accactggct cccttattgc ccgggcatca gggctgctcc atgagagatt 2041 ggatgagttt gaactacagg gcccagctct caccaccttc aactttgacc gcaacaaagt 2101 gcttgccttc aggcagcttg ctgctgaaaa caaatacggg ttgatggaca caatgagagt 2161 tgggaggcag ctcaaggatg tcaaaaccat gccagaactt aaacaagcac tcaagagcat 2221 ctcaatcaag aagtgtcaga ttgtgtacag tggttgcacc tacacacttg agtctgatgg 2281 caagggcaat gtgaaggttg acagagttca gagcacctcc gtgcagacca acaatgagct 2341 ggctggcgcc ctgcaccatc tgaggtgcgc cagaatcagg tactatgtta agtgtgtcca 2401 ggaggccctg tattctatca ttcagattgc tggagctgca ttcgtcacca cgcgcatcat 2461 caagcgtgtg aacattcaaa acttatggtc caagccacaa gtggaaaaca tagaggaagc 2521 caccaacaag gatgggtgcc caaaacccaa agatgatgag gagttcgtca tcacatctga 2581 cgacattaaa actgagggta agaaaggaaa gaacaagact ggccgtggta agaagcacac 2641 agccttctca agtaaaggtc tcagtgatga agagtatgat gagtacaaga gaattagaga 2701 ggaaaggaat ggcaagtact ccatagaaga gtaccttcag gacagggaca aatactatga 2761 ggaggtggcc attgccaggg cgaccgagga agacttctgt gaagaggagg aggccaagat 2821 ccggcaaagg atcttcagac caacaaggaa acaacgcaag gaagaaagag cttctctcgg 2881 tttagtcaca ggttctgaaa ttaggaaaag aaacccagat gatttcaagc ccaaggggaa 2941 actatgggct gacgatgaca gaagtgttga ctacaatgag aaactcagtt ttgaggctcc 3001 gccaagcatc tggtcaagga tagtcaactt tggctcaggt tggggtttct gggtctcccc 3061 cagcctgttc ataacatcaa cccacgtcat accccagggc gcaaaggagt tctttggagt 3121 ccccatcaaa caaattcagg tgcacaagtc aggcgaattc tgtcgcttga ggttcccaaa 3181 accaatcagg actgatgtga ctggcatgat cttggaagaa ggcgcgcctg aaggcaccgt 3241 ggccacacta ctcatcaaaa ggtctactgg agaactcatg cccctagcag ccagaatggg 3301 gacccatgca accatgaaaa ttcaagggcg cactgttgga ggtcagatgg gcatgcttct 3361 gacaggatcc aacgccaaaa gcatggatct aggcaccaca ccaggtgatt gcggctgtcc 3421 ctacatctac aagagaggga atgactatgt ggtcattgga gtccacacgg ctgccgctcg 3481 tgggggaaac actgttatat gtgccaccca ggggggtgag ggggaagcta cacttgaagg 3541 tggtgacagt aagggaacgt actgcggtgc gccaatccta ggcccaggga gcgccccaaa 3601 acttagtacc aaaaccaaat tctggaggtc atccacagca ccactcccac ctggcaccta 3661 tgagccagcc taccttggtg gcaaggaccc cagagtcaag ggtggcccct cgctgcagca 3721 agtcatgaga gaccagctga aaccattcac agagcccagg ggtaagccac caaagccaag 3781 tgtgttggaa gctgccaaga aaaccatcat caatgttctt gaacaaacaa ttgacccacc 3841 tgagaagtgg tcgttcgcac aggcttgcgc gtcccttgac aagaccactt ctagcggcca 3901 tccgcatcac atgcggaaaa acgactgctg gaacggggag tccttcacag gcaagctggc 3961 agaccaggct tccaaggcca acctgatgtt tgaagaaggg aagagcatga ccccagttta 4021 cacaggtgcg ctcaaggacg agttggtcaa aactgataaa atttatggca agataaagaa 4081 gaggcttctc tggggctcgg atttagcaac catgatccgg tgtgctcgag cattcggagg 4141 cctaatggat gaactcaaag cacactgtgt cacacttcct atcagagttg gtatgaatat 4201 gaatgaggat ggccccgtca tcttcgagaa gcactccagg tacaggtacc actatgatgc 4261 tgattactct cgatgggatt caacacaaca gagagccgtg ctggcagctg ctctagaaat 4321 tatggttaaa ttctcctcag aaccacattt ggctcaggtg gtcgcagaag accttctttc 4381 tcctagcgtg gtggatgtgg gtgacttcac aatatcaatc aatgagggtc ttccctctgg 4441 ggtgccctgc acttctcaat ggaactccat cgcccactgg cttctcactc tatgtgcact 4501 ctccgaagtc acaaatttgt ccccagacat catacaggct aattctctct tctccttcta 4561 tggtgatgat gaaattgtta gtacagacat aaaactagac ccagagaagt tgacagcaaa 4621 gcttaaggaa tatgggttaa aaccaacccg ccctgacaaa actgaaggac ctcttgttat 4681 ttctgaagac ttagatggtt tgactttcct gcggagaact gtgacccgcg acccagctgg 4741 ttggtttgga aaactggagc agagctcaat actcaggcaa atgtactgga ctaggggccc 4801 caaccatgaa gatccatctg aatcaatgat tccacactct caaagaccca tacaactgat 4861 gtccctgctg ggagaggccg cactccacgg cccaacattc tatagtaaaa ttagcaaatt 4921 agtcattgca gagctaaaag aaggtggtat ggatttttac gtgcccaggc aagagccaat 4981 gttcagatgg atgagattct cagatctgag cacgtgggag ggcgatcgca atctggctcc 5041 cagctttgtg aatgaagatg gcgtcgaatg acgccaaccc atctgatggg tccgcagcca 5101 acctcgtccc agaggtcaac aatgaggtta tggctttgga gcccgttgtc ggtgccgcta 5161 ttgcggcgcc tgtagcgggc caacaaaatg taattgaccc ctggattagg aataattttg 5221 tacaagcccc tggtggagaa ttcacagtat cccctagaaa cgctccaggt gaaatactat 5281 ggagcgcgcc cttaggccct gatctgaatc cctacctatc ccatttggcc agaatgtata 5341 atggttatgc aggtggcttt gaagtgcagg tgatcctcgc gggaaacgcg ttcaccgccg 5401 gaaaaattat atttgcagca gttccaccaa attttccaac tgaaggcttg agccccagcc 5461 aggttactat gttcccccac ataatagtag atgttaggca actggaacct gtgttgatcc 5521 ccttacctga tgttaggaat aacttctatc attataatca gtcaaacgat tctaccatta 5581 aattgatagc aatgctgtac acaccactta gggctaataa tgctggggaa gatgtcttca 5641 cagtctcttg tcgagtcctc acgaggccat cccctgattt tgattttata tttttggtgc 5701 cacccacagt tgagtcaaga accaaaccat ttactgtccc aatcttaact gttgaagaaa 5761 tgaccaattc aagattcccc atccctttgg aaaagctgtt cacgggcccc agcggtgcct 5821 ttattgtcca accacaaaat ggtagatgca cgaccgatgg cgtgctctta ggcaccaccc 5881 aactgtctcc tgtcaacatc tgcaccttca gagggggtgt cacccacatt gcaggttctc 5941 gcaattacac gatgaatttg gcttctctaa attggaataa ttatgaccca acagaagaaa 6001 ttccagcccc tctgggaact ccagatttcg tgggaaagat ccaaggtgtg ctcactcaaa 6061 ccacaaaggg agatggctcg acccgtggcc ataaagcaac agtttacact gggagtgccc 6121 cctttactcc aaagctgggc agtgttcaat tcagtactga cacagaaaat gattttgaag 6181 ctcaccaaaa cacaaaattc accccagtcg gtgtcatcca ggatggtggc accacccacc 6241 gaaatgaacc ccaacaatgg gtgctcccaa gttattcagg tagagatgtc cacaatgtac 6301 acctggcccc tgctgtagcc cccacttttc cgggtgaaca acttcttttc ttcaggtcca 6361 ctatgcccgg atgcagtggg tatcccaaca tggatttgga ttgcctactc cctcaggagt 6421 gggtgcagca cttctaccaa gaggcagctc cagcacaatc tgatgtggct ctattgagat 6481 ttgtgaatcc agacacgggt agggtcctgt ttgagtgcaa acttcataaa tcaggctatg 6541 tcacagtggc ccacaccggc cagcatgatt tggtcatccc ccctaatggc tattttaggt 6601 ttgattcctg ggttaaccaa ttctatacac ttgcccccat gggaaatgga acggggcgta 6661 gacgtgcttt ataatggctg gggctttctt tgctggattg gcatctgatg tccttggctc 6721 tggacttggc tccctaatca atgctggggc tggggctatc aaccaaaaga ttgattttga 6781 aaataacaga aaattgcagc aagcttcctt ccagtttagc agtaatctac aacaggcctc 6841 ctttcaacat gacaaagaga tgctccaagc acaaattgag gccactaaaa agttgcaaca 6901 ggaaatgatg agagtcaaac aggcaatgct cttagaaggt gggttctctg aaacagatgc 6961 agctcgtggg gcaatcaacg cccccatgac aaaggttttg gactggagtg gaacaaggta 7021 ctgggcccct gataccagga ctacaacata caatgcaggc cgcttttcca ccccccaacc 7081 ctcggggtca ttgccaggaa gaaccaatcc caggactcct actcccgctc gggcctcctc 7141 cagtacatcc tctaatgctt ctactgttgc ttctatatac tcaaatcaaa ctgtttcaac 7201 gagacttggt tctacagctg gctctggcac caatgtctcg agtctcccgt caactgcaag 7261 gactaagagt tgggttgagg atcaaaacag aaatttgtca cctt //