Typing tool
|
Complete norovirus genomes
KX158279 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5094 ORF2: 5075..6697 ORF3: 6697..7503LOCUS KX158279 7542 bp RNA linear VRL 03-DEC-2016 DEFINITION Norovirus GII strain 13-38, complete genome. ACCESSION KX158279 VERSION KX158279.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7542) AUTHORS Ronholm,J., Nasheri,N. and Petronella,N. TITLE Whole Genome Sequencing of Norovirus JOURNAL Unpublished REFERENCE 2 (bases 1 to 7542) AUTHORS Ronholm,J., Nasheri,N. and Petronella,N. TITLE Direct Submission JOURNAL Submitted (26-APR-2016) Bureau of Microbial Hazards, Health Canada, 251 Sir Frederick Banting Driveway, Ottawa, ON K1A 0K9, Canada COMMENT ##Assembly-Data-START## Assembly Method :: SPAdes v. 3.7.1 Coverage :: 976 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7542 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="13-38" /host="Homo sapiens" /db_xref="taxon:122929" /country="Canada" /collection_date="2015" /note="genotype: GII" CDS 1..5094 /codon_start=1 /product="ORF1" /protein_id="APE73899.1" /translation="MASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQ PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEET NTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLVLGVHKPPAAISLA KVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA VELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS ASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAK KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG LLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSD LKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCA RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLK PKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY SIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTG SEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL FITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPG SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRG KPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNG ESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLAT MIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDST QQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQ WNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEY GLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNH EDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPM FRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5075..6697 /codon_start=1 /product="VP1" /protein_id="APE73900.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6697..7503 /codon_start=1 /product="VP2" /protein_id="APE73901.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSDTDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS NFSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga catcgcaaaa 61 tcttcaagtg acggtgtgtt ttctaacatg gctgtcactt ttaagcgggc cctcggggcg 121 cggcctaaac agccgccccc gaaggaaata ccacccagac ccccgcgacc acccacacca 181 gaattggtca aaaagatccc tcctccccca cccaacgggg aggatgaact agtggtctct 241 tacagcgcca aagatggcgt ttccggactg cctgagctca ccactgtcag acaaccggaa 301 gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gggagagcag ggacgccaag 361 gagccactga ctggaacaat cattgaaatg tgggatggag aaatctacca ttacggcctg 421 tacgtggagc gaggtcttgt acttggtgtg cacaagccac cggcagccat tagccttgcc 481 aaggtcgagc tagcaccgct ctctttgttc tggagacctg tatacacccc ccagtatctc 541 atctctccag acactcttag gagattacat ggagagtcat tcccctacac tgcatttgac 601 aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcatg gctaagcagg 661 agaatgattc agagaacaac aggtttcttc aggccgtacc aggattggaa caggaaaccc 721 ctccccacta tggatgattc caaattaaag aaggtagcca acatattctt gtgcactttg 781 tcttcactat tcaccagacc cattaaggac ataataggga agttgaaacc tcttaacatc 841 cttaatattc tggctacatg tgattggacc ttcgcaggca tagtggaatc cttaatactc 901 ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat gatcgccccc 961 ttgctaggtg attatgaact gcaaggacct gaggaccttg cagtggaact ggtcccaata 1021 gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaatcgg aaagatgcta 1081 tcatccgctg catccacttt aagagcttgt aaagaccttg gtgcatacgg actggaaatc 1141 ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga actggctatg 1201 gtgagatcca tcgaggatgc agtactagac ctcgaggcaa ttgaaaacaa ccacatgacc 1261 accctactca aagacaaaga cagcttagca acctacatga gaacccttga ccttgaggag 1321 gagaaagcca gaaaactctc aaccaaatct gcttcacccg atattgtggg cacaatcaac 1381 tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcgaa agaagagctc 1441 tccagcaggc cgagacctgt cgttgtgatg atatcgggaa gaccagggat agggaaaact 1501 caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga ccagcgtgtg 1561 ggtcttatcc cacgcaatgg tgtcgaccac tgggacgcat acaagggcga aagagttgtc 1621 ctatgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt gcaggagctt 1681 gctgacactt gcccccttac gctaaattgt gacagaattg agaacaaagg gaaagtcttt 1741 gacagtgatg ccataattat caccaccaat ctggccaacc cagcaccact ggattatgtc 1801 aactttgaag cgtgctcgag acgcattgac ttcctcgtgt acgcagaagc ccctgaggtg 1861 gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc tttcagtcct 1921 gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa gaacggcaac 1981 accccgcatg gaaaaggggt catgaagacc ctcaccactg gctccctcat cgcccgagca 2041 tcagggttac tccatgagag gctagatgaa tatgaactgc aaggcccagc cctcaccact 2101 ttcaactttg accgcaacaa gatacttgct tttagacagc ttgctgctga aaacaagtat 2161 gggctgatgg acacaatgag agttggaaaa cagctcaagg atgtcaagac catgtcagac 2221 ctcaaacaag cactcaagaa catcgcgatc aagaagtgcc agatagtgta caatggtagc 2281 acctacacac ttgaggctga tggcaagggt agtgtgaaag ttgacaaagt gcagagtgcc 2341 actgtgcaga ccaacaatga actagccggt gccctacacc acctaaggtg cgctagaatc 2401 agatactatg ttaagtgcgt ccaggaggca ctatattcca tcatccaaat cgctggggct 2461 gcattcgtca ccacgcgcat cgctaagcgc atgaatatac agaatctctg gtccaagcca 2521 caggtggaag acacagaaga gatggccaac aaagatggtt gcctaaaacc caaagatgat 2581 gaagagtttg tcgtctcatc cgacgacatc aaaactgagg gcaagaaagg gaagaacaag 2641 tccggccgtg gcaagaagca cacagccttc tcaagcaaag ggctcagtga tgaggagtac 2701 gatgagtaca agagaatcag agaagaaagg aatggtaagt actccataga agagtacctt 2761 caggacagag acaggtacta cgaggaggtg gccattgcca gggcaaccga agaggacttc 2821 tgtgaagaag aagaggccaa aatccggcag agaattttca gaccaacaag gaaacaacgc 2881 aaagaagaga gggcctctct cggcttggtc acaggctctg aaatcaggaa gagaaaccca 2941 gaagacttca aacccaaggg aaagttgtgg gctgatgatg acagaagtgt tgactacaat 3001 gagaaactca actttgaggc cccaccaagc atctggtcgc ggatagtcaa ctttggttca 3061 ggctggggct tctgggtctc ccccagtctg tttataacat caacccatgt cataccccaa 3121 ggtgcaaaag agttcttcgg agtccctatc aagcaaatcc agatacacaa atcaggtgaa 3181 ttctgccggt tgagattccc aaagccaatt agaactgatg tgacgggcat gattctagaa 3241 gaaggtgcgc ccgaggggac cgtggccaca ctgctcatca agagaccaac tggagagctc 3301 atgcctctgg cagccagaat ggggacccat gcaaccatga aaattcaggg gcgcacagtt 3361 ggagggcaaa tgggtatgct cctgacagga tccaacgcca agagtatgga cctaggcaca 3421 acaccaggcg actgcggctg cccctacatc tacaagaggg ggaatgacta cgtggtcata 3481 ggagtccata cggccgctgc ccgtggagga aacactgtca tatgtgccac ccaggggagt 3541 gagggagaag ccacacttga aggaggtgac agtaaaggga catactgtgg cgcaccaatc 3601 ttgggcccag ggagcgctcc gaagctcagt accaagacta agttttggag atcatccaca 3661 acaccactcc cacctggcac ctacgaacca gcctacctcg gtggcagaga ccctagagtc 3721 aaaggtggcc cttcattgca acaagttatg agggaccagc tgaagccatt cacagaaccc 3781 agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat catcaatgtc 3841 cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaagcttg cgcatccctt 3901 gacaaaacca cctccagcgg ccacccgcac cacatgcgga aaaacgactg ttggaatggg 3961 gagtccttca caggaaaatt ggctgatcaa gcctccaagg ccaacctaat gtttgaagag 4021 ggaaagaaca tgactccagt ttacacaggt gcacttaaag atgagttggt aaagaccgat 4081 aaagtttatg gtaaggtcaa gaagaggctt ctgtggggtt cagatctggc gaccatgata 4141 cggtgcgccc gagcttttgg aggccttatg gatgaactca aggcacactg tgtcacactt 4201 cctgtcagag ttggtatgaa catgaatgag gatggcccca tcatctttga gaagcactcc 4261 agatatagat atcactatga tgctgattat tcccggtggg actcaacaca acaaagggat 4321 gtgctagcag cagcactaga aatcatggtt aagttctctc cagaaccaca cctggcccag 4381 atagttgcag aagacctcct ttcccctagc gtaatggatg taggtgactt tcaaatatca 4441 ataagtgagg gtctcccctc tggggtacct tgtacctccc agtggaattc catcgcccac 4501 tggctcctca ctctgtgtgc actctctgaa gtcacggacc tgtcccctga tatcattcag 4561 gccaactccc ttttctcctt ctatggtgat gatgagattg taagcacaga cataaagttg 4621 gacccagaga agctgacagc aaaactcaag gagtacgggc tgaaaccaac ccgccccgac 4681 aaaactgaag gaccccttgt tatctctgaa gacctggatg gcctgacatt cctccggaga 4741 actgtgaccc gtgatccagc tggctggttt ggaaaattgg aacaaagttc aattctcagg 4801 caaatgtact ggaccagggg tcccaaccat gaagatccat ttgaaacaat gataccacac 4861 tcccaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca cggcccggca 4921 ttctatagta aaattagcaa attagtcatt gcagagttga aggaaggtgg catggatttt 4981 tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct gagcacgtgg 5041 gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga gtgacgccaa 5101 cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg ttatggctct 5161 ggagcccgtt gttggtgccg ccattgcggc acctgtagcg ggccagcaaa atgtaattga 5221 cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag tatcccctag 5281 aaacgctcca ggtgaaatac tatggagcgc gcccttgggc cctgatctaa atccctacct 5341 atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaattct 5401 cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac caaattttcc 5461 aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag tagatgttag 5521 gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct atcattacaa 5581 tcaatcaaat gaccccacca ttaagttgat agcaatgttg tatacaccac ttagggctaa 5641 taatgctggg gatgatgtct tcacagtttc ttgccgagtt ctcacgagac catcccccga 5701 ttttgatttc atatttctag tgccacccac agttgagtca agaaccaaac cattctctgt 5761 cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt tggaaaagtt 5821 gttcacgggt cccagcagtg cctttgttgt ccaaccacaa aacggcaggt gcacgactga 5881 tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct tcagaggaga 5941 tgtcacccat atcacaggta gtcgtaacta cacaatgaat ttggcttctc aaaattggaa 6001 caattatgac ccaacagaag aaatcccagc ccctctagga actccagatt ttgtggggaa 6061 gattcaaggc gtgctcaccc aaaccacgag gacagatggc tcaacacgtg gccacaaagc 6121 tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc aatttgaaac 6181 tgacacagac catgattttg aagctaacca aaacacaaag ttcaccccag ttggtgtcat 6241 ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc caagttactc 6301 aggcagaaat actcctaatg tgcatctggc ccctgctgta gcccccactt ttccgggtga 6361 gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca acatggattt 6421 ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag ccccagcaca 6481 atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt tgtttgagtg 6541 taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg atttggttat 6601 cccccccaat ggttatttta ggtttgattc ctgggtcaac cagttttaca cgcttgcccc 6661 catgggaaat ggaacggggc gtagacgtgc actataatgg ctggagcttt ctttgctgga 6721 ctggcatctg atgtccttgg ctccggactt ggttccctca tcaatgctgg ggctggggcc 6781 atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc cttccaattt 6841 agcagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca agcacaaatt 6901 gaggccacca aaaggctaca acaggaaatg atgaaagtta agcaggcaat gctcctagag 6961 ggtgggttct ctgacacaga tgcagcccgc ggggcaatca acgcccccat gacaaaagct 7021 ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac atacaatgca 7081 ggccgctttt ccacccctca accatcgggg gcactgccag gaagagctaa tcttagggat 7141 gctgtccctg ctcggggttc ctccagcaag tcttctaatt tttctactgc tacttctgtg 7201 tattcaaatc aaactacttc aacgagactt ggttctacag ctggttctgg taccagtgtc 7261 tcgagcttcc cgtcaactgc aaggactagg agctgggttg aggatcaaag taggaatttg 7321 tcacctttca tgaggggggc ccacaacata tcgtttgtca ccccaccatc tagcagatcc 7381 tctagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg gactggcgct 7441 ttcaacacgc gcaggcagcc actcttcgct cacattcgta agcgagggga gtcacgggcg 7501 taatgtgaaa agacaaaatt gattatcttt ctttctcttt ag //