Typing tool
|
Complete norovirus genomes
KM198482 | GII.4 Den Haag | ||
---|---|---|---|
GII.P4 Den Haag |
ORF1: 70..5088 ORF2: 5069..6691 ORF3: 6691..7431LOCUS KM198482 7431 bp RNA linear VRL 13-NOV-2014 DEFINITION Norovirus Hu/GII/10114/2009/VNM nonstructural polyprotein and capsid protein VP1 genes, complete cds; and capsid protein VP2 gene, partial cds. ACCESSION KM198482 VERSION KM198482.1 KEYWORDS . SOURCE Norovirus Hu/GII/10114/2009/VNM ORGANISM Norovirus Hu/GII/10114/2009/VNM Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7431) 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 7431) 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..7431 /organism="Norovirus Hu/GII/10114/2009/VNM" /mol_type="genomic RNA" /isolate="Hu/GII/10114/2009/VNM" /host="Homo sapiens" /db_xref="taxon:1526943" /country="Viet Nam" /collection_date="09-Jul-2009" /note="genotype: GII" CDS 70..5088 /note="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="AII02574.1" /translation="MFSNMAVTFKRALGARPKQPPPREIPQRPPRPPTPELVKKIPPP PPNGEDEVVVSYSAKDGVSGLPELSTVRQPEETNTAFSVPPLNQRENRDAKEPLTGTI LEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSLFWRPVYTPQYLISPDT LKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPT MDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNIINILASCDWTFAGIVESLILL AELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVELVPVVMGGIGLVLGFTKEKIGKM LSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENN HMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLARIAAARSLVHR AKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGDQRVGLIPRNGVDHWDA YKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDVIIITTNL ANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSSDFSHIKLAL APQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEFELQGPALTTFNFDRNK VLAFRQLAAENKYGLIDTMKVGRQLKDVKTMPELKQALKNISIKKCQIVYSGCTYTLE SDGKGNVKVDRIQSTSVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFV TTRIIKRVNIQDLWSKPQVENTEEATNKDGCPKPKDDEEFVISSDDIKTEGKKGKNKT GRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDKYYEEVAIARATEED FCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPEDFKPKGKLWADDDRSV DYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQV HKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRSTGELMPLAARMGTHATM KIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGN TVICATQGGEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTAPLPPGTYE PAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLEAAKKTIINVLEQTIDP PEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNMT PVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLTDELKAHCVTLPIR VGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRVVLAAALEIMVKFSSEPHLAQI VAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTNLSPDII QANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTF LRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSESMIPHSQRPIQLMSLLGEAA LHGPTFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNE DGVE" CDS 5069..6691 /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="AII02575.1" /translation="MKMASNDANPSDGSAANLVPEVSNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQTNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRDVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6691..>7431 /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="AII02576.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIDFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRINPRTPTPARGSSSTSS NASTATSIHSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTG" ORIGIN 1 tctaacgacg cttccgctgc cgctgttgct aacagcaaca acgacactgc aaaatcttca 61 agtgacaaaa tgttttctaa catggctgtc acttttaaac gagccctcgg ggcgcggcct 121 aaacagcccc ccccgaggga aataccacaa agacccccac gaccacctac tccagaactg 181 gtcaaaaaga tccctcctcc cccgcccaac ggagaggatg aagtagtggt ttcttatagt 241 gccaaagatg gcgtttccgg tttgcctgag ctttccaccg tcaggcaacc ggaagaaacc 301 aatacggcat tcagtgtccc tccactcaac cagagggaga atagagatgc taaggaacca 361 ctaactggaa caattctgga aatgtgggat ggagaaatct accactatgg cctgtatgtt 421 gagcgaggtc ttgtgctggg tgtgcacaaa ccaccagctg ccataagcct cgccaaggtc 481 gaactaacac cactctcctt gttctggaga cctgtgtaca ctccccagta cctcatctct 541 ccagacactc tcaagaaatt gcacggagaa acgtttccct acacagcctt tgacaacaat 601 tgctatgcct tttgttgttg ggtcctggat ctaaatgact cgtggctgag taggagaatg 661 atccagagaa caactggctt cttcagaccc taccaagact ggaataggaa acccctcccc 721 actatggatg attccaaatt aaagaaggta gctaacatat tcctgtgcgc cctgtcttcg 781 ctattcacca ggcccataaa agacataata ggaaagctaa gacctctcaa catcatcaac 841 atcctggctt catgtgattg gactttcgca ggcatagtgg agtccttgat actcttggca 901 gagctctttg gagtcttctg gacaccccca gatgtgtctg cgatgattgc ccccttactc 961 ggtgatttcg agttacaagg acctgaggac cttgtagtgg agctcgtccc tgtagtaatg 1021 gggggaattg gtttggtgct gggattcacc aaagagaaga ttgggaaaat gttgtcatct 1081 gctgcatcca ccttgagagc ttgtaaagat cttggtgcat atgggctaga gatcctaaaa 1141 ttagtcatga agtggttttt cccgaagaaa gaggaggcaa atgaactggc tatggtgaga 1201 tccatcgagg atgcagtact ggaccttgag gcaattgaaa acaaccatat gaccaccttg 1261 ctcaaagaca aagacagcct ggcaacctac atgagaaccc ttgacctcga ggaggagaaa 1321 gccagaaaac tctcaaccaa gtctgcttca cctgacatcg tgggcacaat caacgccctt 1381 ctggcgagaa tcgccgctgc acgctccctg gtgcaccgag cgaaggagga gctttccagc 1441 agaccaagac ctgtagtctt gatgatatca ggcagaccag ggataggaaa aacccacctt 1501 gctagggaag tggctaagag aatcgcagcc tccctcacag gagaccagcg tgtaggcctc 1561 atcccacgca atggcgtcga tcactgggac gcgtacaagg gggagagggt cgtcctatgg 1621 gacgactatg gaatgagcaa ccccattcac gacgccctta ggctgcaaga actcgctgac 1681 acttgccccc ttactctaaa ttgtgacagg attgagaata aaggaaaggt ctttgacagc 1741 gatgtcatca ttatcaccac taatctggcc aacccagcac cactggacta tgtcaacttt 1801 gaagcgtgct cgaggcgcat cgatttcctc gtgtatgcag aagcccccga ggtcgaaaag 1861 gcgaagcgtg acttcccggg ccaacctgac atgtggaaaa acgcttttag ttctgatttc 1921 tcacacataa aattggcact ggctccacaa ggtggctttg ataagaacgg gaacactcca 1981 cacgggaagg gcgtcatgaa gactctcacc actggctccc ttattgcccg ggcatcaggg 2041 ctgctccatg agagattgga tgagtttgaa ctacagggcc cagctcttac caccttcaac 2101 tttgaccgca acaaagtgct tgcctttaga cagcttgctg ctgaaaacaa atatgggttg 2161 atagacacaa tgaaagttgg gaggcagctc aaggatgtca aaaccatgcc agaacttaaa 2221 caagcactca agaacatctc aatcaagaag tgccagattg tgtatagtgg ttgcacctac 2281 acacttgaat ctgatggcaa gggcaatgtg aaagttgaca gaatccagag cacctccgta 2341 cagaccaaca atgagctggc tggcgccctg catcatctga ggtgcgccag aatcaggtac 2401 tatgtcaagt gtgtccagga ggccctgtat tctatcatcc agattgctgg ggctgcattt 2461 gtcaccacgc gcatcatcaa gcgtgtgaac attcaagact tatggtccaa gccacaagtg 2521 gaaaacacag aggaggctac caacaaggac gggtgcccaa aacccaaaga tgatgaggag 2581 ttcgtcattt catctgacga cattaaaact gagggtaaga aagggaagaa caagactggc 2641 cgtggcaaga agcatacagc cttctcaagt aaaggtctca gtgatgaaga gtatgatgag 2701 tacaagagaa ttagagagga aaggaatggc aagtattcca tagaagagta ccttcaggac 2761 agggacaaat actatgagga ggtggccatt gccagggcga ccgaggaaga cttctgtgaa 2821 gaggaggagg ccaagatccg gcaaaggatc ttcagaccaa caaggaaaca acgcaaggaa 2881 gaaagagctt ctctcggttt agtcacaggt tctgagatta ggaaaagaaa cccagaagac 2941 ttcaagccta agggaaaact atgggctgac gatgacagaa gtgtggacta caatgagaaa 3001 ctcagttttg aggccccacc aagcatctgg tcaaggatag tcaactttgg ttcaggttgg 3061 ggcttctggg tctcccctag cctgttcata acatcaaccc acgtcatacc ccagggcgca 3121 aaggagttct ttggagtccc catcaaacaa attcaggtac acaagtcagg cgaattctgt 3181 cgcttgaggt tcccaaaacc aatcaggact gacgtgactg gcatgatctt ggaagaaggt 3241 gcgcccgaag gcaccgtggt cacactactc atcaaaaggt ctactggaga actcatgccc 3301 ctagcagcta gaatggggac ccatgcaacc atgaaaattc aagggcgcac cgttggaggt 3361 cagatgggca tgcttctgac aggatccaac gccaagagca tggatctagg caccacacca 3421 ggtgattgcg gctgtcccta catctacaag agaggaaatg actatgtggt cattggagtc 3481 cacacggctg ccgctcgtgg gggaaacact gtcatatgtg ccacccaggg gggcgagggg 3541 gaagctacac ttgaaggtgg tgacagtaag ggaacatact gtggtgcacc aatcctaggc 3601 ccagggagtg ccccaaaact tagcaccaaa accaaattct ggagatcatc cacagcacca 3661 ctcccacctg gcacctatga accagcctac cttggtggca aggaccccag agtcaagggt 3721 ggcccttcgt tgcagcaagt catgagggac cagctgaaac catttacaga gcccaggggt 3781 aagccaccaa agccaagtgt gttagaagct gccaagaaaa ccatcatcaa tgtccttgaa 3841 caaacaattg acccacctga gaagtggtcg ttcgcacaag cttgcgcctc ccttgacaag 3901 accacttcta gcggccatcc gcaccatatg cggaaaaacg actgctggaa tggggagtcc 3961 ttcacaggca agctggcaga ccaggcttcc aaggctaacc tgatgtttga agaagggaaa 4021 aacatgaccc cagtctacac aggtgcactt aaggatgaat tagtcaaaac tgacaaaatt 4081 tatggtaaga tcaaaaagag gcttctctgg ggctcggatt tagcaaccat gatccggtgt 4141 gctcgagcat tcggaggcct aacggatgaa ctcaaagcac actgtgtcac acttcctatt 4201 agagttggta tgaatatgaa tgaggatggc cccatcatct tcgagaagca ttccaggtac 4261 agataccact atgatgctga ttactctcgg tgggattcaa cacaacagag agtcgtgctg 4321 gcagctgctc tagaaatcat ggttaaattc tcctcagaac cacatttggc tcagatagtc 4381 gcagaagatc ttctttcccc tagcgtggtg gatgtgggtg acttcacaat atcaatcaac 4441 gagggccttc cctctggggt gccttgcacc tcccaatgga actccatcgc ccactggctt 4501 ctcactcttt gtgcactctc cgaagtcaca aatttgtccc cagacatcat acaggctaat 4561 tctctcttct ccttctatgg tgatgatgaa attgttagta cagacataaa attggaccca 4621 gagaagttga cagcaaagct taaggaatat gggttgaaac caacccgccc tgacaaaact 4681 gaaggacctc tcgttatttc tgaagactta gatggtttga ctttcctgcg gagaactgtg 4741 acccgcgacc cagctggttg gtttggaaaa ctggagcaga gctcaatact caggcaaatg 4801 tactggacta ggggccccaa ccatgaagat ccatctgaat caatgattcc acactctcaa 4861 agacccatac aattgatgtc cttactggga gaggccgcac tccacggccc aacattctac 4921 agtaaaatca gcaaattagt cattgcagag cttaaagaag gtggtatgga tttttacgtg 4981 cccaggcaag agccaatgtt cagatggatg agattctcag atctgagcac gtgggagggc 5041 gatcgcaatc tggctcccag ttttgtgaat gaagatggcg tcgaatgacg ccaacccatc 5101 tgatgggtcc gcagccaacc tcgtcccaga ggtcagcaat gaggttatgg ctttggagcc 5161 cgttgtcggt gccgctattg cggcgcctgt agcgggccaa caaaatgtaa ttgacccctg 5221 gattagaaac aattttgtac aagcccctgg tggagagttc acagtatccc ctagaaacgc 5281 tccaggtgaa atactatgga gcgcgccctt aggccctgat ctgaatccct acctatctca 5341 tttggccaga atgtataatg gttatgcagg tggttttgaa gtgcaggtga tccttgcggg 5401 gaacgcgttc accgccggaa aaattatatt tgcagcagtc ccaccaaact ttccaactga 5461 aggcctgagt cccagccagg tcactatgtt cccccacata atagtagatg ttaggcaatt 5521 ggaacctgtg ttgatcccct tacctgatgt taggaataat ttctatcatt ataatcagac 5581 aaatgattct accattaaat tgatagcaat gctgtataca ccacttaggg ccaataatgc 5641 tggggaagat gtcttcacag tctcttgtcg agtcctcact aggccgtccc ctgattttga 5701 ttttatattt ttggtgccac ccacagttga gtcaagaact aaaccattta ctgtcccaat 5761 cttaaccgtt gaagaaatga ccaattcaag atttcccatt cctttggaaa agttgttcac 5821 gggtcccagc ggtgcctttg ttgtccaacc acaaaatggc aggtgcacga ctgatggcgt 5881 gctcttaggc accacccaac tgtctcctgt caacatctgc accttcagag gggatgtcac 5941 ccacattgca ggatctcgta attacacaat gaatttggca tctctaaatt ggaacaatta 6001 tgacccaaca gaagaaattc cagcccctct gggaactcca gatttcgtgg gaaagatcca 6061 aggtgtgctc actcaaacca caaaaggaga tggctcgacc cgtggccata aagctacagt 6121 ttacactggg agtgccccct ttactccaaa gctgggcagt gttcaattca gtactgacac 6181 agaaaatgat tttgaaactc accaaaacac aaaattcacc ccagtcggtg tcatccagga 6241 tggtggcacc acccaccgaa atgaacccca acaatgggtg ctcccaagtt attcaggtag 6301 agatgttcat aatgtacacc tagcccctgc tgtagccccc acttttccgg gtgaacaact 6361 tcttttcttc aggtccacta tgcccggatg tagcgggtat cccaacatgg atttggattg 6421 cctactcccc caggagtggg tgcagcactt ctaccaagag gcagctccag cacagtctga 6481 tgtggctcta ttgagatttg tgaatccaga cacgggtagg gtcctgtttg agtgcaaact 6541 tcataaatca ggctatgtca cagtggccca caccggtcag catgatttgg tcatcccccc 6601 caatggctat tttaggtttg attcctgggt taatcagttc tacacacttg cccccatggg 6661 aaacggaacg gggcgtaggc gcgctttata atggctggag ctttctttgc tggactggca 6721 tctgatgtcc ttggctctgg acttggttcc ctaatcaatg ctggggctgg ggctatcaac 6781 caaaagattg attttgaaaa taatagaaaa ttgcagcaag cttccttcca gtttagcagt 6841 aatcttcaac aggcttcctt tcaacacgat aaagagatgc tccaagcaca aatcgaggcc 6901 actaaaaagt tgcaacagga aatgatgaaa gtcaaacagg caatgctcct agaaggtgga 6961 ttctctgaaa cagatgcagc ccgtggggca atcaacgccc ccatgacaaa agttttggac 7021 tggagcggaa caaggtactg ggcccctgat gctaggacta caacatacaa tgcaggccgc 7081 ttttccaccc ctcaaccttc ggggacgctg ccaggaagaa tcaatcccag gactcctacc 7141 cccgctcggg gctcctccag tacatcttct aatgcttcta ctgctacttc tatacattca 7201 aatcaaactg tttcaacgag acttggttct acagctggtt ctggtaccaa tgtctcgagt 7261 ctcccgtcaa ctgcaaggac taggagttgg gttgaggatc aaaacagaaa tttgtcacct 7321 ttcatgaggg gggctcataa catatcgttt gtcaccccac catctagcag atcctctagc 7381 caaggcacag tctcaaccgt gcctaaagaa gttttggact cctggactgg c //