Typing tool
|
Complete norovirus genomes
AY587983 | GII.4 Farmington Hills | ||
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GII.P4 Farmington Hills |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS AY587983 7558 bp RNA linear VRL 14-SEP-2004 DEFINITION Norovirus Hu/NLV/Oxford/B4S2/2002/UK, complete genome. ACCESSION AY587983 VERSION AY587983.1 KEYWORDS . SOURCE Norovirus Hu/NLV/Oxford/B4S2/2002/UK ORGANISM Norovirus Hu/NLV/Oxford/B4S2/2002/UK Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7558) AUTHORS Dingle,K.E. CONSRTM Norovirus Infection Control in Oxfordshire Communities Hospitals TITLE Mutation in a Lordsdale norovirus epidemic strain as a potential indicator of transmission routes JOURNAL J. Clin. Microbiol. 42 (9), 3950-3957 (2004) PUBMED 15364974 REFERENCE 2 (bases 1 to 7558) AUTHORS Dingle,K.E. TITLE Direct Submission JOURNAL Submitted (01-APR-2004) Nuffield Department of Clinical Sciences, Oxford University, Microbiology Level 6, John Radcliffe Hospital, Oxford, Oxfordshire OX3 0SA, UK FEATURES Location/Qualifiers source 1..7558 /organism="Norovirus Hu/NLV/Oxford/B4S2/2002/UK" /mol_type="genomic RNA" /isolate="Hu/NLV/Oxford/B4S2/2002/UK" /db_xref="taxon:272570" CDS 5..5104 /note="ORF1" /codon_start=1 /product="non-structural polyprotein" /protein_id="AAT00233.1" /translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARS KQPPPRETPQRPPRPPTPELVKKIPPPPPNGEDEIVISYSVKDGVSGFPELSTVRQPE EANTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVDRGLVLGVHKPPAAIS LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTVDDSKLKKVANIFLCALSSLFTRPIKDIIGK LKPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGRQLKDVRTM PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTSNELTGALHHLR CARIRYYVRCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVENTEEVTNKDGC PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYRYHYDADYSRWD STQQRAVLASALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5085..6707 /note="ORF2" /codon_start=1 /product="capsid protein" /protein_id="AAT00234.1" /translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT QLSPVNICAFRGDVTHIAGTHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGRIQGML TQTTRGDGSTRGHKATVSTGDVHFTPKLGSIQFNTDTNNDFETGQNTKFTPVGVVQDG NGTHQNEPQQWVLPSYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6707..7513 /codon_start=1 /product="ORF3" /protein_id="AAT00235.1" /translation="MAGAFFAGLASDVLGSGLGSLISAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQGMMEVKRAMLLEGGFSETDASRGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRTNPRATVPARGFSNAPS NTSTATSVYSNQTVSTRLGSTAGSGTSVSSLPSTARTRSWIEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga 61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc 121 cctcggggcg cggtctaaac agcccccccc gagggaaaca ccacaaagac ccccacgacc 181 acctactcca gaactggtca aaaagatccc tcctcccccg cccaacggag aggatgaaat 241 agtgatttct tatagtgtca aagatggcgt ttccggtttt cctgagcttt ccaccgttag 301 gcaaccggaa gaagctaata cggccttcag tgtccccccg ctcaatcaga gggagaatag 361 ggatgctaag gagccactga ctggaacaat tctggaaatg tgggatgggg aaatctacca 421 ttacggcctg tacgtggatc gaggtcttgt actaggcgtg cacaaaccac cagctgccat 481 tagcctcgcc aaggtcgaac taacaccact ctctttgttc tggagacctg tgtatactcc 541 tcagtacctc atctctccag acactctcaa gaaattacac ggagaaacgt tcccttacac 601 agcctttgac aacaattgct atgccttttg ctgctgggtc ctggacctaa acgactcgtg 661 gctgagtagg agaatgatcc agagaacaac tggcttcttc agaccctacc aagattggaa 721 taggaaaccc ctccccactg tggatgattc caagttaaag aaggtagcta atatattcct 781 gtgtgctctg tcttcgctgt tcaccaggcc cataaaagac ataataggga agctaaagcc 841 tcttaacatc ctcaacatct tggcctcatg tgattggact ttcgcaggca tagtggagtc 901 cttgatactc ctggcagagc tctttggagt tttctggaca cccccagatg tgtctgcgat 961 gattgccccc ttactcggtg actacgagtt acaaggaccc gaggaccttg cagtggagct 1021 cgtccctgta gtgatggggg gaattggttt ggtgctggga ttcaccaaag agaagattgg 1081 aaaaatgttg tcatctgctg cgtccacctt gagagcttgc aaagatcttg gtgcatatgg 1141 gctagagatc ctaaagttgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga 1201 actggctatg gtgagatcca tcgaggatgc agtgctggac ctcgaggcaa ttgaaaacaa 1261 ccatatgacc accttgctca aagacaaaga cagtctggca acctacatga gaacccttga 1321 ccttgaggag gagaaagcca gaaaactctc aaccaagtct gcttcacctg acatcgtggg 1381 cacaatcaat gcccttctgg cgagaatcgc tgctgcacgt tccctggtgc atcgagcgaa 1441 ggaggagctt tccagcagac caagacctgt agtcttgatg atatcaggca gaccaggaat 1501 agggaagacc caccttgcta gggaagtggc taagagaatc gcagcctccc tcacaggaga 1561 ccagcgtgta ggcctcatcc cacgcaatgg cgtcgatcac tgggatgcgt acaaggggga 1621 gagggtcgtc ctatgggacg actatggaat gagcaatccc atccacgacg ccctcaggtt 1681 gcaagaactc gctgacactt gccccctcac tctaaactgt gacaggattg agaataaagg 1741 aaaggtcttt gacagcgatg tcatcattat cactactaac ctggccaacc cagcaccact 1801 ggactatgtc aactttgaag catgctcgag gcgcatcgat ttcctcgtgt atgcagaagc 1861 ccctgaagtc gaaaaggcga agcgtgactt cccaggccaa cctgacatgt ggaagaacgc 1921 ctttagttct gatttttcac acataaaact agcactggct ccacagggtg gcttcgataa 1981 aaacgggaac accccgcacg ggaagggcgt catgaagact ctcaccactg gctcccttat 2041 tgcccgggca tcagggctac tccatgagag gctagatgag tttgaactac agggcccagc 2101 tctcaccacc ttcaactttg atcgcaacaa agtgcttgcc tttaggcaac ttgctgctga 2161 aaacaaatat gggttgatgg acacaatgag agttgggagg cagctcaagg atgtcagaac 2221 catgccagag cttaaacaag cactcaagaa tatctcaatc aagaagtgcc agatagtgta 2281 cagtggttgc acctacacac ttgagtctga cggcaagggc aatgtgaaag ttgacagagt 2341 tcagagcacc tccgtgcaga ccagcaatga gctgactggc gccctgcacc acctaaggtg 2401 tgccagaatc aggtactatg tcaggtgtgt ccaggaggcc ctgtattcca tcatccagat 2461 tgctggggct gcatttgtca ccacgcgcat cgtcaaacgc atgaacatac aagacctatg 2521 gtccaagcca caagtggaaa acacagagga ggtcaccaac aaggacgggt gcccaaaacc 2581 caaagatgat gaggagttcg tcatttcatc cgacgacatt aaaactgagg gtaagaaagg 2641 gaagaacaag actggtcgcg gcaagaagca cacagccttc tcaagcaaag gtctcagtga 2701 tgaagagtat gatgagtaca agaggattag agaagagagg aatggcaagt attccataga 2761 agagtacctc caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgaccga 2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta ggccaacaag 2881 aaaacaacgc aaggaggaaa gagcttctct cggtttagtc acaggttctg aaattaggaa 2941 aagaaaccca gatgatttca aacccaaggg gaaactgtgg gctgacgatg acagaagtgt 3001 ggactacaat gagaaactca gctttgaggc cccaccaagc atctggtcga ggatagtcaa 3061 ctttggttca ggttggggct tctgggtctc ccccagtctg ttcataacat caacccatgt 3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaattc aggtacacaa 3181 atcaggcgaa ttctgtcgct tgagattccc aaaaccaatc aggactgatg tgacgggtat 3241 gatcttagaa gaaggtgcgc ccgaaggcac cgtggtcaca ctactcataa aaaggcctac 3301 aggagaactc atgcccctag cagctagaat ggggacccat gcaaccatga aaattcaagg 3361 gcgcactgtt ggaggtcaga tgggcatgct tctgacagga tctaacgcca aaagcatgga 3421 cctaggcacc acaccaggtg attgcggctg tccctacatc tacaagagag gaaatgacta 3481 tgtggtcatt ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac 3541 ccaggggagt gagggggagg ctacacttga aggtggtgac agtaagggaa catactgtgg 3601 tgcaccaatc ctaggcccag ggagtgcccc aaaacttagc accaagacca aattctggag 3661 atcgtccaca gcaccactcc cacctggcac ctatgaacca gcctatcttg gtggcaagga 3721 ccccagggtc aagggtggcc cttcattgca gcaagtcatg agggatcagt tgaaaccatt 3781 tacagagccc aggggaaagc caccaaagcc aagtgtgtta gaagctgcca agaaaaccat 3841 catcaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcattcg cacaagcttg 3901 cgcgtccctc gacaagacca cttccagtgg ccatccgcat cacatgcgga aaaacgactg 3961 ctggaacggg gaatccttca caggcaagct ggcagatcag gcttccaagg ccaacctgat 4021 gttcgaagaa gggaagaaca tgaccccagt ctacacaggt gcgcttaagg atgaattggt 4081 caaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggatttagc 4141 gaccatgatc cgatgtgctc gagcattcgg aggcctaatg gatgaactca aagcacactg 4201 tgttacactt cctatcagag ttggtatgaa tatgaatgag gatggcccca tcatattcga 4261 gaggcattcc aggtacagat atcactatga tgctgattac tctcggtggg attcaacaca 4321 acagagagct gtgttggcat cagctctaga aatcatggtt aaattctcct cagaaccaca 4381 tttggctcag gtagtcgcag aagaccttct ttctcctagc gtggtggatg tgggtgactt 4441 cacaatatca atcaacgagg gcctcccctc tggggtaccc tgcacctccc aatggaactc 4501 catcgcccac tggcttctca ctctctgcgc gctctctgaa gttacaaatc tgtcccctga 4561 catcatacag gctaattccc tcttctcctt ttatggtgat gatgaaatcg ttagcacaga 4621 cataaaattg gacccagaga agttgacagc aaagctcagg gaatatgggc tgaaaccaac 4681 ccgccctgac aaaactgaag ggccccttgt tatctctgaa gacttaaatg gtctgacttt 4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc 4801 aatactcagg caaatgtact ggactagggg ccccaaccat gaagacccat ctgaaacaat 4861 gattccacac tcccaaagac ccatacagtt gatgtcctta ctgggagagg ccgcactcca 4921 cggcccagca ttctacagca aaatcagcaa gttagtcatt gcagagctaa aagaaggtgg 4981 catggatttt tacgtgccca ggcaagagcc aatgttcaga tggatgagat tctcagatct 5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga 5101 atgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg 5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag 5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttgggc cctgatctga 5341 atccctacct ttctcatttg gccagaatgt acaatggcta tgcaggtggc tttgaagtgc 5401 aggtaatcct tgcggggaat gcgttcaccg ccgggaaaat catatttgca gcagtcccac 5461 caaatttccc aactgaaggc ttgagcccca gccaggtcac tatgttcccc catataatag 5521 tagatgttag gcaactggaa cctgtgttga tccccttacc tgatgttagg aacaatttct 5581 atcattacaa ccaatcaaat gaccccacca ttaaattgat agcaatgctg tacacaccac 5641 ttagggctaa taatgctggg gaagatgtct tcacagtctc ttgtcgagtc ctcacgaggc 5701 catcccccga ttttgatttc atatttttgg tgccacccac agttgagtca agaactaaac 5761 cattcaccgt cccaatttta actgttgagg aaatgaccaa ttcaagattc cctattcctt 5821 tggaaaagtt gttcacgggt cctagcggtg cctttgttgt tcaaccacaa aatggcaggt 5881 gcacgactga tggcgtactc ttaggcacta cccaactgtc tcctgtcaac atctgcgcct 5941 tcagagggga tgtcacccac attgcaggca ctcataatta cacaatgaat ttggcttctc 6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctgggg accccagatt 6061 tcgtgggaag gatccaaggc atgctcaccc aaactacaag gggagatggc tctacccgcg 6121 gccacaaagc tacagtgagc actggggatg tccacttcac tccaaagcta ggcagtattc 6181 agttcaacac tgatacaaac aatgattttg aaactggcca aaacacgaaa ttcaccccag 6241 tcggtgttgt ccaggatggt aatggtaccc accaaaatga acctcaacaa tgggtgctcc 6301 caagctactc aggtagaact ggtcataatg tacacctagc ccccgccgta gcccccactt 6361 ttccgggtga gcaacttctt ttcttcaggt ccactatgcc cggatgcagc gggtacccca 6421 acatgaattt ggattgtcta ctcccccaag aatgggtgca gcacttctac caagaggcag 6481 ctccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttc 6541 tatttgagtg caagcttcat aaatcaggct atgtcacagt ggctcacact ggccagcatg 6601 atttggttat cccccccaat ggctacttta gatttgattc ctgggtcaac caattctaca 6661 cacttgcccc catgggaaat gggacggggc gtagacgtgc attataatgg ctggagcttt 6721 cttcgccggg ctggcatctg atgtccttgg ctctggactt ggttccctaa tcagtgctgg 6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcttc 6841 cttccaattt agtagcaatc tacaacaggc ttcctttcaa catgataaag agatgctcca 6901 agcacaaatt gaggccacta aaaagttgca acagggtatg atggaagtta aacgggcaat 6961 gctcctagag ggtggattct ctgaaacaga tgcatcccgt ggggcaatca acgcccccat 7021 gacaaaggct ttggactgga gcggaacaag gtactgggct cctgatgcta ggactacaac 7081 atacaatgca ggccgctttt ccacccctca accctcgggg gcactgccag gaaggaccaa 7141 tcccagggct actgtccccg ctcggggctt ctccaatgca ccttctaata cttctactgc 7201 tacttctgtg tattcaaatc aaactgtttc aacgagactt ggttctacag ctggttctgg 7261 caccagtgtc tcgagtctcc cgtcaactgc aaggactagg agctggattg aggatcaaaa 7321 caggaatttg tcacctttca tgaggggagc tcacaacata tcgtttgtca ccccaccatc 7381 tagtagatcc tctagccaag gcacagtctc aaccgtgcct aaagaagttt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga 7501 gtcacgggcg taatgtgaaa agacaaaatt gattatcttt cctttcttta gggtcttt //