Typing tool
|
Complete norovirus genomes
JX459905 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS JX459905 7560 bp RNA linear VRL 10-MAY-2013 DEFINITION Norovirus Hu/GII.4/Randwick/NSW938K/2011/AU, complete genome. ACCESSION JX459905 VERSION JX459905.1 KEYWORDS . SOURCE Norovirus Hu/GII.4/Randwick/NSW938K/2011/AU ORGANISM Norovirus Hu/GII.4/Randwick/NSW938K/2011/AU Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7560) AUTHORS Eden,J.S., Tanaka,M.M., Boni,M.F., Rawlinson,W.D. and White,P.A. TITLE Recombination within the Pandemic Norovirus GII.4 Lineage JOURNAL J. Virol. 87 (11), 6270-6282 (2013) PUBMED 23536665 REFERENCE 2 (bases 1 to 7560) AUTHORS Eden,J.-S. and White,P.A. TITLE Direct Submission JOURNAL Submitted (06-AUG-2012) School of Biotechnology and Biomolecular Sciences, University of New South Wales, Anzac Parade, Sydney, NSW 2052, Australia FEATURES Location/Qualifiers source 1..7560 /organism="Norovirus Hu/GII.4/Randwick/NSW938K/2011/AU" /mol_type="genomic RNA" /strain="Hu/GII.4/Randwick/NSW938K/2011/AU" /host="Homo sapiens" /db_xref="taxon:1241972" /country="Australia" /collection_date="Aug-2011" /note="genotype: GII.4" 5'UTR 1..4 CDS 5..5104 /note="ORF1" /codon_start=1 /product="non-structural polyprotein" /protein_id="AFV08785.1" /translation="MKMASNDASAAAVANSNNDTAKSSSDKMFSSMAVTFKRALGARP KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVEQGLVLGVHKPPAAIS LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM PELKQALKNISIKKCQIVYSGCTFTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQMENTEEATNKDGC PKPKDIEEFVISSDDIKTEGKKGKNKAGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGASKGTYCGAPILG PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKDGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMAPVYTAALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPFESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5085..6707 /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="AFV08786.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNVPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6707..7513 /note="minor structural protein" /codon_start=1 /product="VP2" /protein_id="AFV08787.1" /translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFFETDAARGAIN APMTKVLDWSGTRYWAPDARTTTYNAGRFSSPQPSGALLGRINPRIPTPARGSSSTSS NASTATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNV SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIHRRGESRV" 3'UTR 7514..7560 ORIGIN 1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga 61 caccgcaaaa tcttcaagtg acaaaatgtt ttctagcatg gctgtcactt ttaaacgagc 121 cctcggggcg cggcctaaac agcccccccc gagggaaata ccacaaagac ccccgcgacc 181 acctactcca gaactggtca aaaagatccc tcctccccca cccaacgggg aggatgaagt 241 agtggtttct tatagtgcca aagatggcgt ttccggttta cctgagcttt ccaccgtcag 301 gcaaccggag gaaaccaata cggccttcag tgtccctcca ctcaatcaga gggagaatag 361 ggatgctaag gaaccactga ctggaacaat tctggaaatg tgggatggag aaatctacca 421 ttatggcctg tatgttgagc aaggtcttgt gttgggtgtg cacaaaccac cagctgccat 481 cagtctcgcc aaggtcgaac taacaccact ctccttgttc tggagacctg tgtacactcc 541 tcaatacctc atctctccag acactctcaa gaaattacac ggagaaacat tcccctacac 601 agccttcgac aacaactgct atgccttttg ttgctgggtc ctggatctaa acgactcgtg 661 gctgagtagg agaatgatcc agagaacaac tggcttcttc agaccctacc aagactggaa 721 taggaaaccc ctccccacta tggatgattc caaattaaag aaggtggcta atatattcct 781 gtgcaccctg tcttcgctat tcactaggcc cataaaagac ataataggga agctaaggcc 841 tctcaacatc atcaacatct tggcttcatg tgattggact ttcgcaggca tagtggagtc 901 cttgatactc ttggcagagc tctttggagt cttctggaca cccccagatg tgtctgcgat 961 gattgccccc ttactcggtg atttcgagtt acaaggacct gaggaccttg tagtggagct 1021 cgtccctgta gtaatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg 1081 aaaaatgttg tcatctgctg catctacctt gagagcttgt aaagatcttg gtgcgtatgg 1141 gctagagatc ctaaagttag tcatgaagtg gttcttcccg aagaaagagg aagcaaatga 1201 actggctatg gtgagatcca tcgaggatgc agtgctggac ctcgaggcaa ttgaaaacaa 1261 ccatatgacc accttgctca aagacaaaga cagcctggca acctatatga gaacccttga 1321 cctcgaggaa gagaaagcca gaaaactctc aaccaagtct gcttcacctg acatcgtggg 1381 cacaatcaac gcccttctgg cgagaatcgc cgctgcacgc tccctggtgc accgggcgaa 1441 ggaggagctt tccagcagac caagacctgt agtcttgatg atatcaggca gaccaggaat 1501 agggaagacc caccttgcta gggaagtggc taagagaatt gcagcctccc tcacaggaga 1561 ccagcgtgtg ggtctcatcc cacgcaatgg cgtcgatcac tgggatgcgt acaaggggga 1621 gagggtcgtc ctatgggacg actatggaat gagcaatccc atccacgacg ccctcaggct 1681 gcaagaactc gctgacactt gccccctcac tctaaattgt gacagaattg agaataaagg 1741 aaaggtcttt gacagcgatg tcattatcat cactactaac ctggccaacc cagcaccact 1801 ggactatgtc aactttgaag cgtgctcgag gcgcatcgat ttcctcgtgt atgcagaagc 1861 ccccgaggtc gaaaaggcga agcgtgactt cccgggccaa cctgacatgt ggaaaaacgc 1921 ttttagttct gatttctcac acataaaatt ggcactggct ccacagggtg gctttgataa 1981 gaacgggaat accccacacg ggaagggcgt catgaagact ctcaccactg gctccctcat 2041 tgcccgggca tcagggctgc tccatgagag attggatgag tttgaactac agggcccagc 2101 tcttaccacc ttcaactttg accgcaacaa agtgcttgcc ttcaggcagc ttgctgctga 2161 aaacaaatac ggtttgatgg acacaatgaa agttgggagg cagctcaagg atgtcaaaac 2221 catgccagaa ctcaaacaag cactcaagaa tatctcaatc aagaagtgcc agattgtgta 2281 tagtggttgc actttcacac ttgagtctga tggtaagggc aatgtgaaag ttgacagagt 2341 tcagagcacc tccgttcaga ccaacaatga gctggctggc gccctgcacc atctaaggtg 2401 cgccagaatc aggtactatg tcaagtgtgt tcaggaggcc ctgtattcta tcatccagat 2461 tgctggggct gcatttgtca ccacgcgcat catcaagcgt gtgaacattc aagatttatg 2521 gtccaagcca caaatggaaa acacagagga ggccaccaac aaggacgggt gtccaaaacc 2581 caaagacatt gaagagttcg tcatttcatc tgacgacatt aaaactgaag gtaagaaagg 2641 gaagaacaag gccggccgtg gcaagaagca cacagccttc tcaagtaaag gtctcagcga 2701 tgaagagtat gatgagtaca agagaattag agaggaaagg aatggcaagt actccataga 2761 agagtaccta caggataggg acaaatacta tgaggaggtg gccattgcca gggcgaccga 2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttca ggccaacaag 2881 gaaacaacgc aaggaagaaa gagcttctct cggtttagtc acaggttctg aaattaggaa 2941 aaggaaccca gaagacttca agcctaaagg gaaactatgg gctgacgatg acagaagtgt 3001 ggactacaat gaaaaactca gctttgaggc cccaccaagc atctggtcaa ggatagtcaa 3061 ctttggttca ggttggggct tctgggtttc ccccagcctg ttcataacat caacccacgt 3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatcc aggtgcacaa 3181 gtcaggcgaa ttctgtcgct tgaggttccc aaaaccaatc aggactgatg tgactggcat 3241 gatcttagaa gaaggtgcgc ccgaaggcac cgtggttaca ctactcatca aaaggtccac 3301 tggagaactc atgcccctag cagctagaat ggggacccat gcaaccatga agattcaagg 3361 gcgcactgtt ggaggacaga tgggcatgct tctgacagga tccaacgcca aaagcatgga 3421 tctaggcacc acaccaggtg attgcggctg tccctatatc tacaagagag gaaatgacta 3481 tgtggtcatt ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac 3541 ccaggggggt gagggggaag ccacacttga aggtggtgcc agtaagggaa catactgtgg 3601 tgcaccaatc ctaggcccag ggagtgcccc aaaacttagc accaaaacca aattctggag 3661 atcatccaca gcaccactcc cacctggcac ctatgaacca gcctacctag gtggcaagga 3721 ccccagggtc aaggacggcc cctcgttgca gcaagtcatg agggaccagc tgaaaccatt 3781 tacagagcct aggggtaagc caccaaagcc aagcgtgtta gaagctgcca agaaaaccat 3841 catcaatgtc cttgaacaaa caattgaccc acctgagaag tggtcgttcg cacaagcttg 3901 cgcgtccctt gacaagacca cttctagcgg ccatccgcac cacatgcgga aaaacgactg 3961 ctggaacggg gaatccttca caggcaagct ggcagaccag gcttccaagg ccaacctgat 4021 gtttgaagaa ggaaagaaca tggccccagt ctacacagct gcacttaagg atgaattagt 4081 taagactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggatttagc 4141 aaccatgatc cggtgtgctc gagcattcgg aggcctgatg gatgaactca aagcacactg 4201 tgtcacactt cctatcagag ttggtatgaa tatgaatgag gatggcccca tcatcttcga 4261 gaagcattcc aggtacagat accactatga tgctgactac tctcggtggg attcaacaca 4321 acagagagct gtgctggcag ctgctttaga aatcatggtt aaattctcct cagaaccaca 4381 tttggctcag gtagtagcgg aagaccttct ttctcctagc gtggtggatg tgggtgactt 4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc 4501 catcgcccac tggctcctca ctctctgtgc actctccgaa gtcacaaatt tgtccccaga 4561 catcatacag gctaattctc tcttctcctt ctatggtgat gatgaaattg ttagcacaga 4621 cataaaatta gacccagaga agttgacagc aaagcttaag gaatacgggt tgaaaccaac 4681 tcgccctgat aaaactgaag gacctcttgt tatttctgaa gacttagatg gtttgacttt 4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagctc 4801 aatactcagg caaatgtact ggactagggg ccccaaccat gaagacccat ttgaatcaat 4861 gattccacac tctcaaagac ccatacaatt gatgtccttg ctgggagagg ccgcgctcca 4921 cggcccaacg ttctacagta aaatcagcaa attagtcatt gcagagctaa aagaaggtgg 4981 tatggatttt tacgtgccca ggcaagagcc aatgttcaga tggatgagat tctcagacct 5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga 5101 atgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg 5161 ttatggcttt ggagcccgtt gtcggtgccg ctattgcggc gcccgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagttcacag 5281 tatcccctag aaacgctcca ggtgaaatac tatggagtgc gcccttaggc cctgatctga 5341 atccctacct atctcacttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc 5401 aggtgatcct cgcggggaac gcgttcaccg ccggaaaaat tatatttgca gcagtcccac 5461 caaattttcc aactgaaggc ttgagtccca gccaggtcac tatgttcccc cacataatag 5521 tggatgttag gcaattggaa cctgtgttga tccccctacc tgatgttagg aataacttct 5581 atcactataa ccagtcaaat gattctacca ttaaattgat agcaatgctg tatacaccac 5641 ttagggctaa taatgctggg gaagatgtct ttacagtctc ttgtcgagtt ctcacgaggc 5701 catcccctga ttttgatttt atattcttag tgccacctac agttgagtca agaactaaac 5761 catttactgt cccaatctta actgttgaag aaatgaccaa ttcaagattc cccattcctt 5821 tggaaaaatt gttcacgggt cccagcagtg cctttgttgt ccaaccacaa aatggcagat 5881 gcacgactga tggcgtgctc ttaggcacca cccaactgtc tcctgtcaac atttgcacct 5941 tcagagggga tgtcacccac attgcaggtt ctcgcaatta cacaatgaat ttggcctctc 6001 taaattggaa caattatgac ccaacagaag aaatcccagc ccctctaggg actccagact 6061 tcgtgggaaa gattcaaggt gtgctcactc aaaccacgaa gggagatggc tcgacccgtg 6121 gccataaagc tacagtttac actgggagtg ccccctttac tccaaagctg ggtagtgttc 6181 aatttagtac tgatacagag aatgattttg aaactcacca aaatacaaaa ttcaccccag 6241 tcggtgtcat ccaggatggt ggcaccaccc accgaaatga accccaacaa tgggtgctcc 6301 caagttattc aggtaggaat gtccctaatg tacacctagc ccctgctgta gcccccactt 6361 ttccgggtga acaacttctt ttctttaggt ccactatgcc cggatgcagc gggtatccca 6421 acatggattt ggattgccta ctcccccagg agtgggtgca gcacttctac caagaggcag 6481 ctccagcaca atctgatgtg gctctattga gatttgtgaa tccagacacg ggtagggtcc 6541 tgtttgagtg caagctccat aaatcaggct atgtcacagt ggctcacacc ggccagcatg 6601 atttggtcat cccccccaat ggttatttta gatttgactc ctgggttaat caattctaca 6661 cgcttgcccc catgggaaat ggaacggggc gtagacgcgc cttataatgg ctggagcttt 6721 ctttgctgga ttggcgtctg atgtccttag ctctggactt ggttccctaa tcaatgctgg 6781 ggctggggct atcaaccaaa agattgattt tgaaaataac agaaaattgc agcaagcctc 6841 cttccagttt agcagtaatc tacaacaggc ttcctttcaa catgataaag agatgctcca 6901 agcacaaatt gaggccacta aaaagttgca acaggaaatg atgaaagtca aacaggcaat 6961 gctcttagaa ggtggattct ttgaaacaga tgcagcccgt ggggcaatta acgcccctat 7021 gacaaaggtc ttggactgga gcggaacaag gtactgggcc cctgatgcta ggactacaac 7081 atacaatgca ggccgttttt cctcccctca accttcgggg gcactgctag gaagaatcaa 7141 tcccaggatt cccacccccg ctcggggctc ctctagcaca tcttctaatg cttccactgc 7201 tacttctata tattcaaatc aaactgtttc aacgagactt ggttctacag ctggttctgg 7261 caccaatgtc tcgagtctcc cgtcaactgc aaggactagg agttgggttg aggatcaaaa 7321 cagaaatttg tcacctttca tgaggggggc tcacaacgta tcgtttgtca ccccaccatc 7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagaagttt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgcc cacattcata ggcgagggga 7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt ccctttcttt agtgtctttt //