Typing tool
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Complete norovirus genomes
HF952129 | GII.4 New Orleans | ||
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GII.P4 New Orleans |
ORF1: 1..5093 ORF2: 5074..6696 ORF3: 6696..7502LOCUS HF952129 7548 bp RNA linear VRL 18-JUN-2013 DEFINITION Norovirus Hu/GII.4/C00007916/2011/UK complete genome. ACCESSION HF952129 VERSION HF952129.1 KEYWORDS complete genome. SOURCE Norovirus Hu/GII.4/C00007916/2011/UK ORGANISM Norovirus Hu/GII.4/C00007916/2011/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 7548) 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..7548 /organism="Norovirus Hu/GII.4/C00007916/2011/UK" /mol_type="genomic RNA" /strain="Hu/GII.4/C00007916/2011/UK" /db_xref="taxon:1331842" gene <1..5093 /gene="non-structural polyprotein" CDS <1..5093 /gene="non-structural polyprotein" /inference="similar to RNA sequence (same species):GQ845367.2" /codon_start=3 /product="ORF1" /protein_id="CCX28633.1" /translation="ASNDASAAAVANSNNDIAKSSSDGVLSSMAVTFKRALGARPKQP PPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPEESN TAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAK VELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSWLS RRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKIRP LNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAV ELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE EANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSA SPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKK IAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLT LNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKR DFPGQPDMWKNAFSSDFSHIRLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGL LHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTMPEL KQALKNVSIKKCQIVYSGCTYILESDGKGNVKVDRIQSAAVQINNELAGALHHLRSAR IRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSNPQVENTEETTSKDGCPKP KDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS IEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGS EIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLF ITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVV TLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGS APTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPRGK PPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPYHVRKNDCWNGE SFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATM IRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQ QRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQW NSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREYG LKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHG DPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMF RWMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5074..6696 /gene="VP1" CDS 5074..6696 /gene="VP1" /inference="similar to RNA sequence (same species):GQ845367.2" /codon_start=1 /product="major capsid protein" /protein_id="CCX28634.1" /translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIPGSHNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTNGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFETNQNTKFTPVGVIQDG STTPRNEPQQWVLPSYSGRNIHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" gene 6696..7502 /gene="VP2" CDS 6696..7502 /gene="VP2" /inference="similar to RNA sequence (same species):GQ845367.2" /codon_start=1 /product="minor capsid protein" /protein_id="CCX28635.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAVN APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRATVPARGSSSTSS NSSIATSVHSNQTTSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" 3'UTR 7503..7548 ORIGIN 1 tggcgtctaa cgacgcttcc gctgccgctg ttgctaacag caacaacgac atcgcaaaat 61 cttcaagtga cggagtgctt tctagcatgg ctgtcacttt taaacgagcc ctcggggcgc 121 ggcctaaaca gcctcccccg agggaaaaac cacaaagacc cccacgacca cccactccag 181 aactggtcaa aaacattccc cctcccccac ccaacggaga ggatgaaata gtggtctctt 241 atagtgtcaa ggatggtgta tccggcttgc ctgacctttc caccgtcagg caaccggaag 301 aatctaacac ggccttcagt gtccccccac tcaatcagag ggagaataga gatgctaagg 361 agccacttac tggaacaatt ctggaaatgt gggacgggga aatctaccat tatggcctgt 421 atgtggagcg aggtcttgta ctaggtgtgc acaaaccacc agctgccatc agcctcgcta 481 aggttgagct agcaccactc tccttgtact ggagacctgt gtacactcct cagtacctca 541 tctctccaga cactctcaag aaattgtccg gagaaacgtt cccctacaca gcctttgaca 601 acaactgtta tgccttttgt tgctgggtcc tggacctaaa cgactcgtgg ctgagcagga 661 gaatgatcca gagaacaact ggtttcttca gaccctatca agactggaat aggaaacccc 721 ttcccactat ggatgactcc aaaataaaga aggtagctaa catattcctg tgtgctctgt 781 cctcgctgtt caccagaccc ataaaagata taatagggaa gataaggcct cttaacatcc 841 tcaacatctt agcctcatgt gactggactt ttgcaggcat agtggagtcc ctgatactct 901 tggcagaact ctttggagtt ttctggacac ccccagatgt gtctgcgatg attgccccct 961 tacttggtga ctacgagcta caaggacctg aggaccttgc agtggagctc gtccccgtag 1021 tgatgggggg aattggtttg gtgctaggat tcaccaaaga gaagattggg aaaatgttgt 1081 catctgctgc gtccaccttg agagcttgta aagaccttgg tgcatatggg ctagagatcc 1141 tgaagctggt catgaagtgg ttcttcccga agaaggagga ggcaaatgag ctggctatgg 1201 tgaggtctat cgaggatgca gtcctagatc tcgaggcaat cgaaaacaac catatgacca 1261 ccttgctcaa agacaaagac agtctggcaa cctatatgag aacacttgac cttgaggagg 1321 agaaagccag gaaactctca accaagtctg cctcacccga catcgtgggc acaatcaacg 1381 ccctcctggc gagaatcgct gccgcacgtt ctctggtgca tcgagcgaag gaggagcttt 1441 ccagcagacc aagacctgtg gtgttgatga tatcaggcag gccaggaata gggaagaccc 1501 acctcgctag ggaagtggct aagaaaatcg cagcctccct tacaggagac cagcgtgtgg 1561 gcctcatccc acgcaatggc gtcgaccatt gggatgcgta caagggggag agggtcgtcc 1621 tatgggacga ttatggaatg agcaacccta ttcacgatgc cctcaggctg caagaactcg 1681 ctgacacttg cccccttact ctaaactgtg acaggattga aaataaagga aaggtctttg 1741 acagcgatgt catcattatc accactaatc tggccaaccc agcaccactg gactatgtca 1801 actttgaagc atgctcgagg cgcatcgact tcctcgtgta tgcagaagcc cctgaagtcg 1861 aaaaggcgaa gcgtgacttc ccaggccagc ctgacatgtg gaagaacgct ttcagttctg 1921 atttctcaca cataaggcta gcactggccc cacagggtgg tttcgacaag aacgggaaca 1981 ccccgcacgg aaagggcgtc atgaagactc tcaccactgg ctcccttatt gcccgggcat 2041 cagggctact ccatgagagg ttagatgaat ttgaactaca gggcccagct ctcaccacct 2101 tcaatttcga tcgcaataaa gtgcttgcct tcagacagct tgctgctgaa aataaatatg 2161 gattgatgga cacaatgagg gttgggaaac agctcaagga tgtcagaacc atgccagaac 2221 tcaaacaagc actcaagaat gtctcaatca agaagtgcca aatagtgtat agtggttgca 2281 cctacatact tgagtctgat ggcaagggca atgtgaaagt tgacagaatc caaagcgccg 2341 ccgtgcagat caacaatgag ctggctggtg ccctgcacca tctgaggagc gccagaatca 2401 gatactatgt caagtgtgtc caggaggccc tgtattccat cattcaaatt gctggggctg 2461 catttgtcac cacgcgcatt gccaagcgca tgaacataca aaacctatgg tccaatccac 2521 aagtggaaaa cacagaggag actaccagca aggacgggtg cccaaaacct aaggatgatg 2581 aggagtttgt catttcatcc gacgacatca aaactgaggg taagaaagga aagaacaaga 2641 ctggccgcgg caagaagcac acagcatttt caagcaaagg cctcagtgat gaagagtacg 2701 atgagtacaa gaggattaga gaagaaagga atggcaagta ctccatagaa gagtaccttc 2761 aggacaggga caaatactat gaggaggtgg ccattgccag ggcgactgag gaagacttct 2821 gtgaagagga ggaggccaag atccggcaaa ggatctttag gccaacaagg aaacaacgca 2881 aggaggaaag agcctctctc ggtctggtca caggctctga aattaggaaa agaaacccag 2941 atgacttcaa acccaagggg aaattgtggg ctgacgatga caggagtgtg gactacaatg 3001 agaaactcag ttttgaggcc ccaccgagca tctggtcgag aatagtcaac tttggttcag 3061 gctggggatt ctgggtctcc cccagtctgt tcataacatc aacccatgtc ataccccagg 3121 gcgcaaagga gttctttgga gtccccatca aacaaataca ggtacacaag tcaggcgagt 3181 tctgtcgctt gagattccca aaaccaatca ggactgatgt gacaggcatg atcttggaag 3241 aaggcgcccc tgagggtacc gtggtcacac tactcatcaa aaggtccact ggggaactca 3301 tgcccctagc agctaggatg gggacccatg cgaccatgaa gatccaaggg cgcactgttg 3361 gaggccagat gggcatgctt ctgacaggat ccaacgccaa gagcatggac ctgggtacta 3421 caccaggtga ttgtggttgc ccctatatct acaagagagg caacgactat gtggtcattg 3481 gagtccacac ggctgccgca cgtgggggga acactgtcat atgtgccacc caggggagtg 3541 aaggagaggc tacacttgaa ggtggtgaca acaaggggac atactgtggt gcaccaatcc 3601 taggcccagg gagtgcccca actcttagca ccaagaccaa attctggaga tcgtctacag 3661 cgtcactccc acctggcacc tatgaaccag cctatcttgg tggcaaggac cctagagtca 3721 agggtggccc ttcactacag caagtcatga gggaacagtt gaagccattc acagagccaa 3781 ggggcaagcc accaaaacca agtgtattag aagctgccaa gaagaccatc atcaatgtcc 3841 ttgagcaaac aattgatcca cctgagaaat ggtcgttcgc acaagcttgc gcgtcccttg 3901 acaagaccac ttccagtggt catccgtacc acgtacggaa aaacgactgc tggaacgggg 3961 agtccttcac aggcaagctg gcagaccagg cttccaaggc caacctgatg tttgaagaag 4021 ggaagaacat gaccccagtc tacacagctg cgctcaagga tgagttagtt aaaactgaca 4081 aaatttatgg taagatcaag aagaggcttc tctggggttc ggacttggcg accatgatcc 4141 ggtgtgctcg agcattcgga ggcctaatgg atgaactcaa agcacactgt gtcacgcttc 4201 ccattagagt tggcatgaat atgaatgagg atggtcccat catcttcgag aggcattcca 4261 ggtacacata tcactatgat gctgattact ctcgatggga ttcaacacaa cagagagccg 4321 tgttggcagc agctctcgaa atcatggtta aattctcccc agaaccacat ttggctcagg 4381 tagtcgcgga agaccttctt tctcctagcg tggtggacgt gggcgacttc acaatatcaa 4441 tcaacgaggg tcttccctct ggggtgccct gcacttccca atggaactcc atcgcccact 4501 ggcttctcac tctctgtgcg ctctctgaag tcacaaacct atcccctgac accatacagg 4561 ctaactccct cttctctttt tatggtgatg atgaaattgt tagcacagac ataaaattgg 4621 acccagagaa attgacagca aagctcagag aatatgggtt aaaaccaacc cgccctgaca 4681 aaactgaagg accccttgtc atctctgaag acctgaacgg cctaactttc ctgcggagaa 4741 ctgtgacccg cgacccagct ggttggtttg gaaaactgga gcagagttca atactcaggc 4801 aaatgtactg gactaggggt cccaaccatg gagacccatc tgaaacaatg attcctcact 4861 cccaaagacc catacaattg atgtccctac tgggggaggc cgctctccac ggcccagcct 4921 tttatagcaa aatcagcaag ttggtcattg cagagctgaa agaaggtggc atggattttt 4981 acgtgcccag acaggagcca atgttcagat ggatgagatt ctcagatctg agcacgtggg 5041 agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag tgacgccaac 5101 ccatctgatg ggtccacagc caacctcgtc ccagaggtca acaatgaggt tatggctttg 5161 gagcccgtag ttggtgccgc cattgcggca cctgtagcgg gccaacaaaa tgtaattgac 5221 ccctggatta gaaacaattt tgtacaagcc cctggtggag agtttacagt atcccccaga 5281 aacgctccag gtgaaatatt atggagcgcg cccttaggcc ctgatctgaa tccctacctt 5341 tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca ggtaatcctc 5401 gcggggaacg cgttcaccgc cgggaaaatc atatttgcag cagtcccacc aaatttccca 5461 actgaaggtt tgagccccag tcaggtcact atgtttcccc atataatagt agatgttagg 5521 caattggaac ctgtgttgat tcccttaccc gatgttagga ataatttcta ccattataat 5581 caatcaaatg accccaccat caaattgata gcaatgttgt atacaccact tagggctaat 5641 aatgctgggg acgatgtctt cacagtttct tgtcgagttc tcacgagacc atcccccgat 5701 tttgatttca tattcttggt gccacccaca gttgaatcaa gaactaaacc attctctgtc 5761 ccaattttaa ctgttgagga gatgaccaat tcaaggttcc ccattccttt ggaaaagttg 5821 ttcacgggcc ccagtagtgc ctttgttgtt caaccacaaa atggcaggtg cacgactgat 5881 ggcgtgctcc taggtactac ccaactgtcc cctgtcaaca tctgcacctt cagaggggat 5941 gtcacccata ttccaggcag tcataactac acaatgaatt tggcctccca aaattggaac 6001 agttacgatc caacagaaga aatcccagcc cctctaggaa ccccagattt cgtggggaag 6061 attcaaggtg tgctcaccca aaccacaagg acaaatggct cgacccgcgg ccacaaagct 6121 acagtgtaca ctgggagcgc cgacttttct ccaaaactgg gtagagttca atttgccact 6181 gacacagaca atgattttga aactaaccag aacacaaagt tcaccccagt cggtgttatc 6241 caggatggta gtaccacccc ccgaaatgaa ccccaacaat gggtgctccc aagttactca 6301 ggcagaaaca ttcataatgt gcacctggcc cccgctgtag cccccacttt cccgggcgag 6361 cagctcctct tcttcagatc tactatgccc ggatgcagcg ggtaccccaa catggatttg 6421 gactgtctgc tcccccagga atgggtgcag tacttctacc aggaggcagc cccagcacaa 6481 tctgatgtgg ctctgttaag atttgtgaat ccagacacag gtagggtttt gtttgagtgt 6541 aagcttcata aatcaggcta tgttacagtg gcacacactg gccaacatga tttggttatc 6601 ccccccaatg gttattttag atttgattcc tgggtcaacc agttctacac acttgcccct 6661 atgggaaatg ggacggggcg tagacgtgca ttataatggc tggagctttc tttgctggat 6721 tggcatctga cgtccttggc tctggacttg gttccctaat caatgctggg gctggggcca 6781 tcaaccaaaa agttgaattt gaaaataaca gaaaattgca acaagcctcc ttccaattta 6841 gtagcaatct acaacaagct tcctttcaac atgacaaaga gatgctccaa gcacaaattg 6901 aggccaccaa aaagttgcaa caggaaatga tgagagtcaa acaagcaatg ctcctagagg 6961 gtggattctc tgagacagat gcagcccgtg gggcagtcaa cgcccccatg acaaaaactt 7021 tggactggag cgggacaagg tactgggctc ccgatgctag gactacaaca tataatgcag 7081 gccgcttttc cacccctcaa ccctcggggg cactaccagg aagagctaat cttagggcta 7141 ctgtccccgc ccggggttcc tccagcacgt cttctaactc ttctattgct acttctgtgc 7201 attcaaatca aaccacctca acgagacttg gttctacagc tggttctggt accaatgtct 7261 cgagcctccc gtcaactgca aggactagga gctgggttga ggatcaaaat aggaatttgt 7321 cacctttcat gaggggggcc cacaacatct cgtttgtcac cccaccatct agcagatcct 7381 ctagccaagg cacagtctca accgtgccca aagaagtttt ggactcctgg actggcgctt 7441 tcaacacgcg caggcagcct ctcttcgctc acattcgcaa gcgaggggag tcacgggcgt 7501 aatgtgaaaa gacaaaattg attatctttc ttctctttag tgtctttt //