Typing tool
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Complete norovirus genomes
HF952132 | GII.4 New Orleans | ||
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GII.P4 New Orleans |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS HF952132 7559 bp RNA linear VRL 18-JUN-2013 DEFINITION Norovirus Hu/GII.4/C00007928/2011/UK complete genome. ACCESSION HF952132 VERSION HF952132.1 KEYWORDS complete genome. SOURCE Norovirus Hu/GII.4/C00007928/2011/UK ORGANISM Norovirus Hu/GII.4/C00007928/2011/UK Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 AUTHORS Batty,E.M., Wong,T.H., Trebes,A., Argoud,K., Attar,M., Buck,D., Ip,C.L., Golubchik,T., Cule,M., Bowden,R., Manganis,C., Klenerman,P., Barnes,E., Walker,A.S., Wyllie,D.H., Wilson,D.J., Dingle,K.E., Peto,T.E., Crook,D.W. and Piazza,P. TITLE A Modified RNA-Seq Approach for Whole Genome Sequencing of RNA Viruses from Faecal and Blood Samples JOURNAL PLoS ONE 8 (6), E66129 (2013) PUBMED 23762474 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 7559) AUTHORS Batty,E. TITLE Direct Submission JOURNAL Submitted (19-MAR-2013) Statistics, University of Oxford, 1 South Parks Road, Oxford, OX1 3TG, UNITED KINGDOM FEATURES Location/Qualifiers source 1..7559 /organism="Norovirus Hu/GII.4/C00007928/2011/UK" /mol_type="genomic RNA" /strain="Hu/GII.4/C00007928/2011/UK" /db_xref="taxon:1331845" 5'UTR 1..4 CDS 5..5104 /inference="similar to RNA sequence (same species):GQ845367.2" /note="ORF1" /codon_start=1 /product="non-structural polyprotein" /protein_id="CCX28642.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGVLSSMAVTFKRALGARP KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIRLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM PELKQALKNVSIKKCQIVYSGCTYILESDGKGNVKVDRIQSAAVQINNELAGALHHLR SARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSNPQVENTEETTSKDGC PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPYHVRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5085..6707 /gene="VP1" CDS 5085..6707 /gene="VP1" /inference="similar to RNA sequence (same species):GQ845367.2" /codon_start=1 /product="major capsid protein" /protein_id="CCX28643.1" /translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIPGSHNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTNGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFETNQNTKFTPVGVIQDG STTPRNEPQQWVLPSYSGRNIHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" gene 6707..7513 /gene="VP2" CDS 6707..7513 /gene="VP2" /inference="similar to RNA sequence (same species):GQ845367.2" /codon_start=1 /product="minor capsid protein" /protein_id="CCX28644.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAVN APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRATVPARGSSSTSS NSSIATSVHSNQTTSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" 3'UTR 7514..7559 ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga 61 catcgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc 121 cctcggggcg cggcctaaac agcctccccc gagggaaaaa ccacaaagac ccccacgacc 181 acccactcca gaactggtca aaaacattcc ccctccccca cccaacggag aggatgaaat 241 agtggtctct tatagtgtca aggatggtgt atccggcttg cctgaccttt ccaccgtcag 301 gcaaccggaa gaatctaaca cggccttcag tgtcccccca ctcaatcaga gggagaatag 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 gaaattgtcc ggagaaacgt tcccctacac 601 agcctttgac aacaactgtt atgccttttg ttgctgggtc ctggacctaa acgactcgtg 661 gctgagcagg agaatgatcc agagaacaac tggtttcttc agaccctatc aagactggaa 721 taggaaaccc cttcccacta tggatgactc caaaataaag aaggtagcta acatattcct 781 gtgtgctctg tcctcgctgt tcaccagacc cataaaagat ataataggga agataaggcc 841 tcttaacatc ctcaacatct tagcctcatg tgactggact tttgcaggca tagtggagtc 901 cctgatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat 961 gattgccccc ttacttggtg actacgagct acaaggacct gaggaccttg cagtggagct 1021 cgtccccgta gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg 1081 gaaaatgttg tcatctgctg cgtccacctt gagagcttgt aaagaccttg gtgcatatgg 1141 gctagagatc ctgaagctgg tcatgaagtg gttcttcccg aagaaggagg aggcaaatga 1201 gctggctatg gtgaggtcta tcgaggatgc agtcctagat ctcgaggcaa tcgaaaacaa 1261 ccatatgacc accttgctca aagacaaaga cagtctggca acctatatga gaacacttga 1321 ccttgaggag gagaaagcca ggaaactctc aaccaagtct gcctcacccg acatcgtggg 1381 cacaatcaac gccctcctgg cgagaatcgc tgccgcacgt tctctggtgc atcgagcgaa 1441 ggaggagctt tccagcagac caagacctgt ggtgttgatg atatcaggca ggccaggaat 1501 agggaagacc cacctcgcta gggaagtggc taagaaaatc gcagcctccc ttacaggaga 1561 ccagcgtgtg ggcctcatcc cacgcaatgg cgtcgaccat tgggatgcgt acaaggggga 1621 gagggtcgtc ctatgggacg attatggaat gagcaaccct attcacgatg ccctcaggct 1681 gcaagaactc gctgacactt gcccccttac 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 acataaggct agcactggcc ccacagggtg gtttcgacaa 1981 gaacgggaac accccgcacg gaaagggcgt catgaagact ctcaccactg gctcccttat 2041 tgcccgggca tcagggctac tccatgagag gttagatgaa tttgaactac agggcccagc 2101 tctcaccacc ttcaatttcg atcgcaataa agtgcttgcc ttcagacagc ttgctgctga 2161 aaataaatat ggattgatgg acacaatgag ggttgggaaa cagctcaagg atgtcagaac 2221 catgccagaa ctcaaacaag cactcaagaa tgtctcaatc aagaagtgcc aaatagtgta 2281 tagtggttgc acctacatac ttgagtctga tggcaagggc aatgtgaaag ttgacagaat 2341 ccaaagcgcc gccgtgcaga tcaacaatga gctggctggt gccctgcacc atctgaggag 2401 cgccagaatc agatactatg tcaagtgtgt ccaggaggcc ctgtattcca tcattcaaat 2461 tgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aaaacctatg 2521 gtccaatcca caagtggaaa acacagagga gactaccagc aaggacgggt gcccaaaacc 2581 taaggatgat gaggagtttg tcatttcatc cgacgacatc aaaactgagg gtaagaaagg 2641 aaagaacaag actggccgcg gcaagaagca cacagcattt tcaagcaaag gcctcagtga 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 gaaattgtgg gctgacgatg acaggagtgt 3001 ggactacaat gagaaactca gttttgaggc cccaccgagc atctggtcga gaatagtcaa 3061 ctttggttca ggctggggat tctgggtctc ccccagtctg ttcataacat caacccatgt 3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa 3181 gtcaggcgag ttctgtcgct tgagattccc aaaaccaatc aggactgatg tgacaggcat 3241 gatcttggaa gaaggcgccc ctgagggtac cgtggtcaca ctactcatca aaaggtccac 3301 tggggaactc atgcccctag cagctaggat ggggacccat gcgaccatga agatccaagg 3361 gcgcactgtt ggaggccaga tgggcatgct tctgacagga tccaacgcca agagcatgga 3421 cctgggtact acaccaggtg attgtggttg cccctatatc tacaagagag gcaacgacta 3481 tgtggtcatt ggagtccaca cggctgccgc acgtgggggg aacactgtca tatgtgccac 3541 ccaggggagt gaaggagagg ctacacttga aggtggtgac aacaagggga catactgtgg 3601 tgcaccaatc ctaggcccag ggagtgcccc aactcttagc accaagacca aattctggag 3661 atcgtctaca gcgtcactcc cacctggcac ctatgaacca gcctatcttg gtggcaagga 3721 ccctagagtc aagggtggcc cttcactaca gcaagtcatg agggaacagt tgaagccatt 3781 cacagagcca aggggcaagc caccaaaacc aagtgtatta gaagctgcca agaagaccat 3841 catcaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcgttcg cacaagcttg 3901 cgcgtccctt gacaagacca cttccagtgg tcatccgtac cacgtacgga aaaacgactg 3961 ctggaacggg gagtccttca caggcaagct ggcagaccag gcttccaagg ccaacctgat 4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagct gcgctcaagg atgagttagt 4081 taaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggtt cggacttggc 4141 gaccatgatc cggtgtgctc gagcattcgg aggcctaatg gatgaactca aagcacactg 4201 tgtcacgctt cccattagag ttggcatgaa tatgaatgag gatggtccca tcatcttcga 4261 gaggcattcc aggtacacat atcactatga tgctgattac tctcgatggg attcaacaca 4321 acagagagcc gtgttggcag cagctctcga aatcatggtt aaattctccc cagaaccaca 4381 tttggctcag gtagtcgcgg aagaccttct ttctcctagc gtggtggacg tgggcgactt 4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacttccc aatggaactc 4501 catcgcccac tggcttctca ctctctgtgc gctctctgaa gtcacaaacc tatcccctga 4561 caccatacag gctaactccc tcttctcttt ttatggtgat gatgaaattg ttagcacaga 4621 cataaaattg gacccagaga aattgacagc aaagctcaga gaatatgggt taaaaccaac 4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gacctgaacg gcctaacttt 4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc 4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagacccat ctgaaacaat 4861 gattcctcac tcccaaagac ccatacaatt gatgtcccta ctgggggagg ccgctctcca 4921 cggcccagcc ttttatagca aaatcagcaa gttggtcatt gcagagctga aagaaggtgg 4981 catggatttt tacgtgccca gacaggagcc aatgttcaga tggatgagat tctcagatct 5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga 5101 gtgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg 5161 ttatggcttt ggagcccgta gttggtgccg ccattgcggc acctgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag 5281 tatcccccag aaacgctcca ggtgaaatat tatggagcgc gcccttaggc cctgatctga 5341 atccctacct ttcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc 5401 aggtaatcct cgcggggaac gcgttcaccg ccgggaaaat catatttgca gcagtcccac 5461 caaatttccc aactgaaggt ttgagcccca gtcaggtcac tatgtttccc catataatag 5521 tagatgttag gcaattggaa cctgtgttga ttcccttacc cgatgttagg aataatttct 5581 accattataa tcaatcaaat gaccccacca tcaaattgat agcaatgttg tatacaccac 5641 ttagggctaa taatgctggg gacgatgtct tcacagtttc ttgtcgagtt ctcacgagac 5701 catcccccga ttttgatttc atattcttgg tgccacccac agttgaatca agaactaaac 5761 cattctctgt cccaatttta actgttgagg agatgaccaa ttcaaggttc cccattcctt 5821 tggaaaagtt gttcacgggc cccagtagtg cctttgttgt tcaaccacaa aatggcaggt 5881 gcacgactga tggcgtgctc ctaggtacta cccaactgtc ccctgtcaac atctgcacct 5941 tcagagggga tgtcacccat attccaggca gtcataacta cacaatgaat ttggcctccc 6001 aaaattggaa cagttacgat ccaacagaag aaatcccagc ccctctagga accccagatt 6061 tcgtggggaa gattcaaggt gtgctcaccc aaaccacaag gacaaatggc tcgacccgcg 6121 gccacaaagc tacagtgtac actgggagcg ccgacttttc tccaaaactg ggtagagttc 6181 aatttgccac tgacacagac aatgattttg aaactaacca gaacacaaag ttcaccccag 6241 tcggtgttat ccaggatggt agtaccaccc cccgaaatga accccaacaa tgggtgctcc 6301 caagttactc aggcagaaac attcataatg tgcacctggc ccccgctgta gcccccactt 6361 tcccgggcga gcagctcctc ttcttcagat ctactatgcc cggatgcagc gggtacccca 6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caggaggcag 6481 ccccagcaca atctgatgtg gctctgttaa gatttgtgaa tccagacaca ggtagggttt 6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggcacacact ggccaacatg 6601 atttggttat cccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca 6661 cacttgcccc tatgggaaat gggacggggc gtagacgtgc attataatgg ctggagcttt 6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctaa tcaatgctgg 6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcctc 6841 cttccaattt agtagcaatc tacaacaagc ttcctttcaa catgacaaag agatgctcca 6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg atgagagtca aacaagcaat 6961 gctcctagag ggtggattct ctgagacaga tgcagcccgt ggggcagtca acgcccccat 7021 gacaaaaact ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac 7081 atataatgca ggccgctttt ccacccctca accctcgggg gcactaccag gaagagctaa 7141 tcttagggct actgtccccg cccggggttc ctccagcacg tcttctaact cttctattgc 7201 tacttctgtg cattcaaatc aaaccacctc aacgagactt ggttctacag ctggttctgg 7261 taccaatgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaaa 7321 taggaatttg tcacctttca tgaggggggc ccacaacatc tcgtttgtca ccccaccatc 7381 tagcagatcc tctagccaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgca agcgagggga 7501 gtcacgggcg taatgtgaaa agacaaaatt gattatcttt cttctcttta gtgtctttt //