Typing tool
|
Complete norovirus genomes
JQ613573 | GII.4 New Orleans | ||
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GII.P4 New Orleans |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS JQ613573 7559 bp RNA linear VRL 10-MAY-2013 DEFINITION Norovirus Hu/GII.4/Helensburgh/NSW295E/2010/AU non-structural polyprotein, VP1, and VP2 genes, complete cds. ACCESSION JQ613573 VERSION JQ613573.1 KEYWORDS . SOURCE Norovirus Hu/GII.4/Helensburgh/NSW295E/2010/AU ORGANISM Norovirus Hu/GII.4/Helensburgh/NSW295E/2010/AU Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7559) 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 7559) 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..7559 /organism="Norovirus Hu/GII.4/Helensburgh/NSW295E/2010/AU" /mol_type="genomic RNA" /strain="Hu/GII.4/Helensburgh/NSW295E/2010/AU" /host="Homo sapiens" /db_xref="taxon:1183254" /country="Australia" /collection_date="Nov-2010" /note="genotype: GII.4" 5'UTR 1..4 CDS 5..5104 /note="ORF1" /codon_start=1 /product="non-structural polyprotein" /protein_id="AFJ21453.1" /translation="MKMASNDASAAAVANSNNDTAKSSSDRVLSSMAVTFKRALGARP KQPPPREKPQRPPRPPTPELVKNVPPPPPNGEDEVVVSYSVKDGVSGLPDLSTVRQPE ESNTAFSVPPLNQRESRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM PELRQALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEEATSKDGC PKPKDDEELVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHVRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5085..6707 /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="AFJ21454.1" /translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIPSSRNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFETNQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNIHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6707..7513 /note="minor structural protein" /codon_start=1 /product="VP2" /protein_id="AFJ21455.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRATVPARGSSSTSS NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWIEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV" 3'UTR 7514..7559 ORIGIN 1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga 61 caccgcaaaa tcttcaagtg acagagtgct ttctagcatg gctgtcactt ttaaacgagc 121 cctcggggcg cggcctaaac agcctccccc gagggaaaaa ccacaaagac ccccacgacc 181 acctactcca gaactggtca aaaatgttcc ccctccccca cccaacggag aggatgaagt 241 agtggtttct tatagtgtca aagatggtgt ttccggcttg cctgaccttt ccaccgtcag 301 gcaaccggaa gaatctaaca cggccttcag tgtccctcca ctcaatcaga gggagagtag 361 agatgctaag gagccactta ctggaacaat tctggaaatg tgggacgggg aaatctacca 421 ttatggcctg tatgtggagc gaggtcttgt actaggtgtg cacaaaccac cagctgccat 481 cagcctcgct aaggttgagc tagcaccact ctccttgtac tggagacctg tgtacactcc 541 tcagtacctc atctctccag acactctcaa gaaattatct ggagaaacgt tcccctacac 601 agcctttgac aacaactgtt atgccttttg ttgctgggtc ctggacctta atgactcgtg 661 gctgagcagg agaatgatcc agagaacaac tggtttcttc aggccctacc aagactggaa 721 taggaaaccc cttcccacta tggatgactc caaaataaag aaggtagcta acatattcct 781 gtgtgctctg tcctcgctgt tcaccagacc cataaaagat ataataggga agataaggcc 841 tcttaacatc ctcaacatct tagcctcatg tgattggact tttgcaggca tagtggagtc 901 cctgatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat 961 gattgccccc ttacttggtg actacgagct acaaggacct gaggatcttg cggtggagct 1021 cgtccccgtg gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg 1081 gaaaatgttg tcatctgccg cgtccacctt gagagcttgt aaagaccttg gtgcatatgg 1141 gctagagatc ctgaagttgg tcatgaagtg gttcttcccg aagaaggagg aggcaaatga 1201 gctggctata gtgaggtcca tcgaggatgc agtcctggat ctcgaggcaa ttgaaaacaa 1261 ccatatgacc accttgctca aagacaaaga cagtctggca acctatatga gaacacttga 1321 ccttgaggag gagaaagcca ggaaactctc aaccaagtct gcctcacccg acatcgtggg 1381 cactatcaac gccctcctgg cgagaatcgc tgccgcacgt tctctggtgc atcgggcgaa 1441 ggaggagctt tccagcagac caagacctgt ggtgttgatg atatcaggca ggccaggaat 1501 agggaagacc cacctcgcta gggaagtggc taagagaatc gcagcctccc ttacaggaga 1561 ccagcgtgtg ggcctcatcc cacgcaatgg cgtcgaccat tgggatgcgt acaaggggga 1621 gagggtcgtc ctatgggacg attatggaat gagcaaccct attcacgacg ccctcaggct 1681 gcaagaactc gctgacactt gccccctcac tctaaactgt gacaggattg aaaataaagg 1741 aaaggtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagcaccact 1801 ggactatgtc aactttgaag catgctcgag gcgcatcgac ttcctcgtgt atgcagaagc 1861 ccctgaagtc gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc 1921 tttcagttct gatttctcac acataaaact agcactggcc ccacagggtg gtttcgacaa 1981 gaacgggaac accccacacg gaaagggcgt catgaagact ctcaccactg gctcccttat 2041 tgcccgggca tcagggctac tccatgagag gttagatgaa tttgaactac agggcccagc 2101 tctcaccacc ttcaatttcg atcgcaataa agtgcttgcc tttagacagc ttgctgctga 2161 aaataaatat ggattgatgg acacaatgag agttgggaaa cagctcaagg atgtcagaac 2221 catgccagaa ctcagacaag cactcaagaa tgtctcaatc aagaagtgcc aaatagtgta 2281 tagtggttgc acctacatgc ttgagtctga tggcaagggc aatgtgaaag ttgacagaat 2341 ccaaagcgcc gccgtgcaga ccaataatga gctggctggt gccctacacc atttgaggtg 2401 cgccagaatc agatactatg tcaagtgtgt ccaggaggcc ctgtactcca tcattcaaat 2461 tgccggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aagacctatg 2521 gtccaagcca caagtggaaa acacagagga ggccaccagc aaggacgggt gcccaaaacc 2581 taaggatgat gaggagttag tcatttcatc cgacgacatc aaaactgagg gtaagaaagg 2641 gaagaacaag actggccgcg gcaagaagca cacagcattt tcaagcaaag gtctcagtga 2701 tgaagagtac gatgagtaca agaggattag agaagaaagg aatggcaagt actccataga 2761 agagtacctt caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgactga 2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta ggccaacaag 2881 gaaacaacgc aaggaggaaa gagcctctct cggtctggtc acaggctctg aaattaggaa 2941 aagaaaccca gatgacttca aacccaaggg gaagttgtgg gctgacgatg acaggagtgt 3001 ggactacaat gagaaactca gttttgaggc cccaccaagc atctggtcga gaatagtcaa 3061 ctttggttca ggctggggat tctgggtctc ccccagtctg ttcataacat caacccatgt 3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtgcacaa 3181 gtcaggcgag ttctgtcgct tgagattccc aaagccaatc aggactgatg tgacgggcat 3241 gatcttagaa gaaggcgcac ctgagggcac cgtggtcaca ctactcatta aaaggtccac 3301 tggggaactc atgcccctag cagctaggat ggggacccat gcgaccatga agatccaagg 3361 gcgcactgtt ggaggccaga tgggcatgct tctgacagga tccaacgcca agagcatgga 3421 cctgggtact acaccaggtg attgtggctg cccctatatc tacaagagag gtaatgacta 3481 tgtggtcatt ggagtccaca cggctgccgc acgtggggga aacactgtca tatgtgccac 3541 ccaggggagt gaaggagagg ccacacttga aggtggtgac aacaagggga catactgtgg 3601 tgcaccaatc ctaggtccag ggagtgcccc aacacttagc accaagacca aattctggag 3661 atcgtccaca gcatcactcc cacctggcac ctatgaacca gcctatcttg gtggcaagga 3721 ccctagagtc aagggtggcc cttcactgca gcaagtcatg agggaacagt tgaagccatt 3781 cacagagcca aggggtaagc caccaaaacc aagtgtatta gaagctgcca agaagaccat 3841 catcaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcgttcg cacaagcttg 3901 cgcgtccctt gacaagacca cttccagtgg tcatccgcac cacgtgcgga aaaacgactg 3961 ctggaacgga gagtccttca caggcaagct ggcagaccag gcttccaagg ccaacctgat 4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagct gcactcaagg atgagttagt 4081 caaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggacttggc 4141 gaccatgatc cggtgtgctc gagcattcgg aggcctaatg gatgaactca aagcacactg 4201 tgtcacactt cccattagag ttggcatgaa tatgaatgag gatggcccca tcatcttcga 4261 gaggcattcc agatacacat atcactatga tgctgattac tctcgatggg actcaacaca 4321 acagagagcc gtgctggcag cagctttaga aatcatggtt aaattctccc cagaaccaca 4381 tttggctcag gtagtcgcgg aagaccttct ttctcctagc gtggtggacg tgggcgactt 4441 cacaatatca attaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc 4501 catcgcccac tggcttctca ctctctgtgc gctctctgaa gtcacaaacc tatcccctga 4561 taccatacag gccaactccc tcttctcttt ttatggtgat gatgaaattg ttagcacaga 4621 cataaaattg gacccagaga aattgacagc aaagctcaga gaatatgggt taaaaccaac 4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gacctgaatg gcctaacttt 4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg aacagagttc 4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagacccat ctgaaacaat 4861 gattccacac tcccaaagac ccatacaatt gatgtcccta ctgggggagg ccgctctcca 4921 cggtccagca ttttacagca aaatcagcaa attggtcatt gcagagctaa aagaaggtgg 4981 catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct 5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga 5101 gtgacgccaa tccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg 5161 ttatggctct ggagcccgta gttggtgccg ctattgcggc acctgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagttcacag 5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatttga 5341 acccctacct ttcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc 5401 aggtaatcct cgcggggaac gcgttcaccg ccgggaaaat catatttgca gcagtcccac 5461 caaatttccc aactgaaggt ctgagcccca gccaggtcac tatgttcccc catataatag 5521 tagatgttag gcaattggaa cctgtgttga ttcccttacc cgatgttagg aataatttct 5581 accactataa tcaatcaaat gaccccacca tcaaactgat agcaatgttg tacacaccac 5641 ttagggctaa taatgccggg gatgatgtct tcacagtttc ttgtcgagtt ctcacgagac 5701 catcccccga ttttgatttt atatttttgg tgccacccac agttgaatca agaactaaac 5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaaggttc cccattcctt 5821 tggaaaagtt gtttacgggc cccagtagtg cctttgttgt tcaaccacaa aacggcaggt 5881 gcacgactga tggcgtgctc ctaggtacta cccaactgtc ccctgtcaac atctgcacct 5941 tcagagggga tgtcacccat attccaagca gtcgtaacta cacaatgaat ttggcctccc 6001 aaaattggaa cagttacgat ccaacagaag agatcccagc ccctctagga actccagatt 6061 tcgtggggaa gattcaaggt gtgctcaccc aaacaacaag gacagatggc tcgactcgcg 6121 gccacaaagc tacagtgtac actgggagcg ccgacttttc tccaaaactg ggtagagttc 6181 aatttgccac tgacacagac aatgattttg aaactaacca aaacacaaag tttaccccag 6241 tcggtgttat ccaggatggt agtactaccc accgaaatga accccaacaa tgggtgctcc 6301 caagttactc aggcagaaac attcataatg tgcacctggc ccccgctgtg gcccccactt 6361 tcccgggcga gcagcttctc ttcttcagat ctactatgcc cggatgcagc gggtacccca 6421 acatggattt ggactgcctg ctcccccagg aatgggtgca gtacttctac caggaggcag 6481 ccccagcaca atctgacgtg gctctgttaa gatttgtgaa tccagacaca ggtagggttt 6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg 6601 atttggttat cccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca 6661 cacttgcccc catgggaaat gggacggggc gtaggcgtgc gttataatgg ctggagcttt 6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctaa tcaatgctgg 6781 ggctggggcc atcaatcaaa aagttgaatt tgaaaacaac agaaaattgc aacaagcttc 6841 cttccaattt agtagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca 6901 agcacaaatt gaggctacca aaaagttgca acaggaaatg atgagagtta aacaagcaat 6961 gctcctagag ggtggattct ctgagacaga tgcagcccgt ggggcaatca acgcccccat 7021 gacaaaaact ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac 7081 atataatgca ggccgctttt ccacccctca accctcgggg gcactaccag gaagagctaa 7141 tcttagggct accgttcccg cccggggttc ctccagcacg tcttctaatt cttctattgc 7201 tacttctgtg tattcaaatc aaaccacctc aacgagactt ggttctacag ctggttctgg 7261 taccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctggattg aggatcaaaa 7321 taggaatttg tcacctttca tgaggggggc ccacaacatc tcgtttgtca ccccaccatc 7381 tagcagatcc tctagccaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgcc cacattcgca agcgagggga 7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt cttttcttta gtgtctttt //