Typing tool
|
Complete norovirus genomes
JQ613572 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS JQ613572 7560 bp RNA linear VRL 10-MAY-2013 DEFINITION Norovirus Hu/GII.4/StVincents/NSW217I/2010/AU non-structural polyprotein, VP1, and VP2 genes, complete cds. ACCESSION JQ613572 VERSION JQ613572.1 KEYWORDS . SOURCE Norovirus Hu/GII.4/StVincents/NSW217I/2010/AU ORGANISM Norovirus Hu/GII.4/StVincents/NSW217I/2010/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 (03-FEB-2012) School of Biotechnology and Biomolecular Sciences, University of New South Wales, Anzac Parade, Sydney, NSW 2052, Australia COMMENT ##Assembly-Data-START## Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7560 /organism="Norovirus Hu/GII.4/StVincents/NSW217I/2010/AU" /mol_type="genomic RNA" /strain="Hu/GII.4/StVincents/NSW217I/2010/AU" /host="Homo sapiens" /db_xref="taxon:1183313" /country="Australia" /collection_date="Apr-2010" /note="genotype: GII.4" 5'UTR 1..4 CDS 5..5104 /note="ORF1" /codon_start=1 /product="non-structural polyprotein" /protein_id="AFJ21450.1" /translation="MKMASNDASAAAVANSNNDTAKSSNDKMFSNMAVTLKRALGARP KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDDVVVSYSAKDGVSGLPELSTVRQPE ETSTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTM PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATSKDGC PKPKDDEEFVVSSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPVRVGINMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE SMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5085..6707 /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="AFJ21451.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGETLWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTQGDGSTRGHKATVYTGSADFTPKLGSVQFATDTENDFETHQNTKFTPVGVIQDG STTHRNEPQQWALPSYSGRSAHNVHLAPAVAPNFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6707..7513 /note="minor structural protein" /codon_start=1 /product="VP2" /protein_id="AFJ21452.1" /translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFFETDAARGAIN APMTKALDWSGTRYWAPDARITTYNAGRFSTPQPSGALPGRINPRNPTPARGSPSISS NASIATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNM SFVTPPSSRSSSQGTVSTVPKDVLDSWTGAFNTRRQPLFAHIRRRGESRV" 3'UTR 7514..7560 ORIGIN 1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga 61 caccgcaaaa tcttcaaatg acaaaatgtt ttctaacatg gctgtcactc ttaaacgggc 121 cctcggggcg cggcctaaac agcccccccc gagggaaata ccacaaaggc ccccacgacc 181 acctactcca gaactggtca aaaagatccc tcctcccccg cccaacggag aggatgatgt 241 agtggtttct tatagtgcca aagacggcgt ttccggtttg cctgagcttt ccaccgtcag 301 gcaaccggaa gaaaccagta cggccttcag cgtccctcca ctcaatcaga gggagaatag 361 ggatgctaag gaaccactga ctgggacaat tctggaaatg tgggatggag aaatctacca 421 ttatggcctg tatgttgagc gaggtcttgt gctgggtgta cacaaaccac cagctgccat 481 tagtctcgcc aaggtcgaat taacaccact ctccttgttc tggagacctg tgtacactcc 541 tcagtacctc atttctccag acactctcaa gaagttacac ggagaaacat ttccctacac 601 agcctttgac aacaactgct atgccttttg ttgctgggtc ctggatttaa acgactcgtg 661 gctgagtagg agaatgatcc agagaacaac tggcttcttc agaccctacc aagattggaa 721 taggaaaccc ctccccacta tggatgattc caaattgaag aaggtagcta acatattcct 781 gtgtgccctg tcttcgctat tcaccaggcc cataaaagac ataataggaa agttaaggcc 841 tctcaacatc atcaacatcc tggcttcatg tgattggact ttcgcaggca tagtggagtc 901 cttgatactc ttggcagagc tctttggagt cttctggaca cccccagatg tgtctgcgat 961 gattgccccc ttactcggtg attttgagtt acaaggacct gaggaccttg tagtggagct 1021 cgtccctgta gtgatggggg ggattggttt ggtgctagga ttcaccaaag agaagattgg 1081 aaaaatgttg tcatctgctg catccacctt aagagcttgc aaagaccttg gtgcatatgg 1141 gctagagatc ctaaagttag tcatgaagtg gttcttcccg aagaaagagg aagcgaatga 1201 actggctatg gtgagatcca tcgaggatgc agtactggac cttgaggcaa ttgaaaacaa 1261 ccatatgacc accttgctca aagacaaaga cagcctggca acctacatga gaacccttga 1321 cctcgaggaa gagaaagcca gaaaactctc aaccaagtct gcttcacctg acatcgtggg 1381 cacaatcaac gcacttctgg cgagaatcgc cgctgcacgc tccctggtgc accgagcgaa 1441 ggaggagctt tccagcagac caagacctgt agtcttgatg atatcaggca ggccaggaat 1501 agggaagacc caccttgcca gggaagtggc taagagaatc gcagcctccc tcacaggaga 1561 ccagcgtgta ggcctcatcc cacgcaatgg cgtcgatcac tgggatgcgt acaaggggga 1621 gagggtcgtc ctatgggacg actacggaat gagcaatccc atccacgacg ccctcaggct 1681 gcaagaactc gctgacactt gccccctcac cctaaattgt gacaggattg agaataaagg 1741 aaaggtcttt gacagcgatg tcatcattat cactactaac ctggccaacc cagcaccact 1801 ggactatgtc aactttgaag catgctcgag gcgcatcgat ttcctcgtgt acgcagaggc 1861 ccccgaggtc gaaaaggcga agcgcgactt cccgggccag cctgacatgt ggaaaaacgc 1921 ttttagttct gatttctcac acataaaatt ggcactagct ccacaaggtg gctttgataa 1981 gaatgggaac accccacacg ggaagggcgt catgaagact ctcaccactg gctccctcat 2041 tgcccgggca tcagggctgc ttcatgagag attggatgag tttgaactac agggcccagc 2101 tctcaccacc tttaactttg accgcaacaa agtgcttgcc ttcagacagc ttgctgctga 2161 aaacaaatat gggttgatgg acacaatgaa agttgggagg cagctcaagg atgtcagaac 2221 catgccagaa cttaaacaag cactcaagaa tatctcaatc aagaagtgcc agattgtgta 2281 cagtggttgc acatacacac ttgagtctga tggcaagggc aatgtgaaag ttgacagagt 2341 tcagagtacc tccgttcaga ccaacaatga gttggctggc gccctgcacc atctaaggtg 2401 cgccagaatc aggtattatg ttaagtgtgt tcaggaggcc ctgtattcta tcatccagat 2461 tgctggggct gcatttgtca ccacgcgcat catcaagcgt gtgaacattc aagacttatg 2521 gtccaagcca caagtggaaa acacagagga ggctaccagc aaggacgggt gcccaaaacc 2581 caaagatgat gaggagttcg tcgtttcatc tgacgacatt aaaactgagg gtaagaaagg 2641 gaagaacaag actggccgcg gcaagaagca cacagccttc tcaagtaaag gtctcagtga 2701 tgaagagtat gacgagtaca agagaattag agaggaaagg aatggcaagt actccataga 2761 agagtacctt caggacaggg acaaatatta tgaggaggtg gccattgcca gggcgaccga 2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttca gaccaacaag 2881 gaagcaacgc aaggaagaaa gggcttctct cggtttagtc acaggttctg aaattaggaa 2941 aagaaatcca gaagacttca agcccaaggg gaaactatgg gctgacgatg acagaagtgt 3001 ggactacaat gaaaaactca gttttgaggc cccaccaagc atctggtcaa ggatagtcaa 3061 ctttggctca ggttggggct tctgggtctc ccccagcctg ttcataacat caacccacgt 3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaattc aggtgcacaa 3181 gtcaggcgaa ttctgtcgct tgaggttccc aaaaccaatc aggactgatg tgactggcat 3241 gatcttggag gaaggtgccc ccgaaggcac cgtagtcaca ctactcatca aaaggtctac 3301 tggagaactc atgcccctag cagctagaat gggaacccac gcaaccatga aaattcaagg 3361 gcgcactgtt ggaggtcaga tgggcatgct tctgacagga tccaacgcca aaagcatgga 3421 tctgggcacc acaccaggtg attgcggctg tccctacatc tacaagagag gaaacgacta 3481 tgtagtcatt ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac 3541 ccaggggggt gaaggggaag ctacacttga aggtggtgac agtaagggaa catactgtgg 3601 tgcaccaatc ctaggcccag ggagtgcccc aaaactcagc accaaaacca aattctggag 3661 atcatccaca gcaccactcc cacctggcac ctatgaacca gcctaccttg gtggcaaaga 3721 ccccagagtc aagggtggcc cctcgttgca gcaagtcatg agggaccagc tgaaaccatt 3781 tacagagcct aggggtaagc caccaaagcc aagtgtgtta gaagctgcca agaaaaccat 3841 catcaatgtc cttgaacaga caattgaccc acctgagaag tggtcgttcg cacaagcttg 3901 cgcgtccctt gataagacca cttctagcgg ccatccgcac cacatgcgga aaaacgactg 3961 ctggaacggg gagtccttca caggcaagct ggcagaccag gcttccaagg ccaacctgat 4021 gtttgaagaa gggaagaaca tgaccccagt ctacacaggt gcacttaagg atgaattagt 4081 caaaactgac aaaatttatg gcaagatcaa gaagaggctt ctctggggct cggatttggc 4141 aaccatgatc cggtgtgctc gagcattcgg aggtctgatg gatgaactca aagcacactg 4201 tgtcacactc cctgtcagag ttggtataaa tatgaatgag gatggcccca tcatcttcga 4261 gaagcattcc aggtacagat accactatga tgctgattac tctcggtggg attcaacaca 4321 acagagagcc gtgctggcag ctgctctaga aatcatggtt aaattctcct cagaaccaca 4381 tttggctcag gtagtagcag aagaccttct ttctcctagc gtagtggatg tgggtgactt 4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc 4501 tatcgcccac tggcttctca ctctctgtgc actctccgaa gtcacaaatt tgtctccaga 4561 catcatacag gctaattctc tcttctcctt ctatggtgat gatgaaattg ttagtacaga 4621 cataaaatta gacccagaga agttgacggc aaagcttaag gaatatgggt tgaaaccaac 4681 ccgccctgac aaaactgaag ggcctcttgt tatttctgaa gacttagacg gtttgacttt 4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagctc 4801 aatactcagg caaatgtact ggactagggg ccccaaccat gaagacccat ctgaatcaat 4861 gatcccacac tctcaaagac ccatacaatt gatgtcctta ctgggagagg ccgcactcca 4921 cggcccaaca ttctacagta aaatcagcaa attagtcatt gcagagctaa aagaaggtgg 4981 catggatttt tacgtgccca ggcaagagtc aatgttcagg tggatgagat tctcggatct 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 ccctggtggg gagttcacag 5281 tatcccctag aaacgctcca ggtgaaacat tatggagcgc gcccttaggc cctgacctga 5341 atccctacct atctcatttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc 5401 aagtgatcct cgcggggaac gcgttcaccg ccggaaaaat tatatttgca gcagtcccac 5461 caaattttcc aactgaaggc ttgagtccca gccaggtcac tatgttcccc catataatag 5521 tagatgttag acaattggaa cctgtgttga tccccttacc tgatgttagg aataacttct 5581 atcactataa tcagtcaaat gattctacca ttaaattgat agcaatgctg tatacaccac 5641 ttagggccaa taatgccggg gatgatgtct tcacagtctc ttgtcgagtc ctcacgaggc 5701 catcccctga ttttgatttc atatttttgg tgccacctac agttgagtca agaaccaagc 5761 catttactgt cccaatcttg actgttgaag aaatgaccaa ttcaagattc cccattcctt 5821 tggaaaaatt gttcacgggt cccagcagtg cctttgttgt tcaaccacaa aatggcaggt 5881 gcacgactga tggcgtgctc ttaggcacca cccaactgtc tcctgtcaac atctgcacct 5941 tcagagggga tgtcacccac attgcgggtt ctcgcaatta cacaatgaat ttggcctctc 6001 taaattggaa caattatgac ccaacagaag aaatcccagc ccctctggga actccagatt 6061 tcgtgggaaa gatccaaggt atgctcactc aaaccacaca gggagatggc tcgacccggg 6121 gccataaagc cacagtttac actgggagtg ccgacttcac tccaaagctg ggcagtgttc 6181 aatttgctac tgatacagaa aatgattttg aaactcacca aaatacaaaa ttcaccccag 6241 tcggtgtcat ccaggatggt agcaccaccc accgaaatga accccaacaa tgggcgctcc 6301 caagttattc aggtagaagt gcccataatg tgcacctagc ccctgctgta gcccccaatt 6361 ttccgggtga acaacttctc ttcttcaggt ccactatgcc cggatgcagc gggtatccca 6421 acatggattt ggattgccta ctcccccagg agtgggtgca gcacttctac caagaggcag 6481 ctccagcgca atctgatgtg gctctattga gatttgtgaa tccagacacg ggtagggtct 6541 tgtttgagtg caaacttcat aaatcaggct atgtcacagt ggctcacacc ggccaacatg 6601 atttggttat cccccccaat ggttatttta ggtttgattc ctgggttaat cagttctaca 6661 cacttgctcc catgggaaat ggaacggggc gtagacgtgc tttataatgg ctggagcttt 6721 ctttgctgga ttggcatctg atgtccttag ctctggactt ggttccctaa tcaatgctgg 6781 ggctggggct atcaaccaaa agattgattt tgaaaataat agaaaattgc agcaagcctc 6841 ctttcagttt agcagtaatc tacaacaggc ttccttccaa catgataaag agatgctcca 6901 agcacaaatt gaggccacta aaaagttaca acaagaaatg atgaaagtta aacaggcaat 6961 gctcttagaa ggtggattct ttgaaacaga tgcagcccgt ggggcaatca acgcccccat 7021 gacaaaggct ttggactgga gcggaacaag gtactgggcc cctgatgcta ggattacaac 7081 atataatgca ggccgctttt ccacccccca accttcgggg gcactgccag gaagaatcaa 7141 tcccaggaac cctacccccg ctaggggctc ccccagtata tcttccaatg cttctattgc 7201 tacttctata tattcaaatc aaactgtttc aacgagactt ggttctacag ctggttctgg 7261 caccaatgtc tcgagtctcc cgtcaactgc aaggactagg agttgggttg aggatcaaaa 7321 cagaaatttg tcacctttca tgaggggggc tcacaacatg tcgtttgtca ctccaccatc 7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagatgttt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta ggcgagggga 7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt ccctttcttt agtgtctttt //