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Typing tool
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Complete norovirus genomes
MG572715 | GII.12 | ![]() |
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GII.P1 |
ORF1: 1..5284 ORF2: 5268..6935 ORF3: 6935..7732LOCUS MG572715 7900 bp RNA linear VRL 13-APR-2018 DEFINITION California sea lion norovirus strain Csl/NoV2/PF080916-2 ORF1 polyprotein gene, partial cds; and VP1 capsid protein and VP2 minor structural protein genes, complete cds. ACCESSION MG572715 VERSION MG572715.1 KEYWORDS . SOURCE California sea lion norovirus ORGANISM California sea lion norovirus Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus. REFERENCE 1 (bases 1 to 7900) AUTHORS Woo,P.C.Y., Teng,J.L.L., Chan,W.M., Lau,S.K.P. and Yuen,K.Y. TITLE Two novel noroviruses and a novel norovirus genogroup in California sea lions JOURNAL Unpublished REFERENCE 2 (bases 1 to 7900) AUTHORS Woo,P.C.Y., Teng,J.L.L., Chan,W.M., Lau,S.K.P. and Yuen,K.Y. TITLE Direct Submission JOURNAL Submitted (27-NOV-2017) Microbiology, The University of Hong Kong, Pok Fu Lam Road, Queen Mary Hospital, Hong Kong, Hong Kong COMMENT ##Assembly-Data-START## Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7900 /organism="California sea lion norovirus" /mol_type="genomic RNA" /strain="Csl/NoV2/PF080916-2" /isolate="PF080916" /host="Zalophus californianus (California sea lion)" /db_xref="taxon:2070151" /geo_loc_name="Hong Kong" /collection_date="Sep-2008" CDS <1..5284 /codon_start=2 /product="ORF1 polyprotein" /protein_id="AUO60020.1" /translation="DVSAAASSAKNTTNNNKTNTTAEVYKDSAGNPQEGFFANMKVGV KKALGARPKERPKPQESKPPDQDPAQQQDAIPSIRDAVKELCSVISGKNQPEIDQAPN TDSAQDVKPPSEEEKARVNMEVDEFGKVKYVRDQDQIIGLPNLHTVEIPKERSPKCVP PPADREVKVPKEPPAGAILEMYDGDFYHYAIYLERGLILGINRPGWALSTAIVNIEPI GLWWRVVYVPPFQVSLPALYHLNGEKFPYNAFDNNCYNFCCQVLELDDSWLNRKHVQR TSGFFDPYQPWNKKPSVHIPDTKLEKVADMFLTALGALFSRPIKNIIGRLKPLNVLNL LTSCDWSFASIVETIILLAELFGIYWEPPDVTAFIMPLLEDFELQGPEDLAAELVPVI LGGIGMAIGFTAEKAGKLLSSAASTLRATKEIGNYGLEIFKLIMKWFFPKKGDEEAMN NLVRGIEEAVLDLEALENNHMTKLLKSKDLMSAYIKTLDAEEEKARKLSTKASSPDIV ATVNALLARISAARSLIHKAKEEMCSRVRPVVVMVSGRPGIGKTHYARHLAERVASTL GNDKRVGLIPRNGVDHWDAYRGEQVVLWDDYGMGNIIKDALTLQELADTCPVTLNCDR IENKGKMFDSDVIIITTNSPNPSPMDYVNMEAVARRVDFLVYADAPDIEKAKKECPGD PKAWKPHFKDDHSHLKLTLAPQGGFDKAGNTPHGKGVVKQVTPSGLVARVAALVAERR DDFQLEGGEPKVYNFDASQVSAFRRLAADNKYGLVETMRVGNKLRGVTNMDQFRAAIR DVKFSRCRIIYKGITYDLESDGKGKVTIDRVQDQMVQQVNEVHQAVLRIRQARLRYYV QVAQEVIYSLLQTAGAAFVVHRIMKRNGDPWSSWKAEIKAAQPEPDESSRAPPKTPCS QCEKPFGQCTCRWVVEPEDFEDEGKKGKNKKGRGRKHTAFSSKGLSDEEYDEYKKIRE ERGGKYSIQEYLEDRDRYQEEVALIQASGGDCDDVTLGRIRNEIFRPSKKQRKEERSK LGLVTGREIRQRKPDDFKPKGKLWADDERETDYNEKIQFEAPASVWSRIVQFGTGWAF WVSPSLLITSTHVIPKGVEEMFGVPINQIQVHKCGEFCRLRFPKAIRTDVSGMILEDG APEGTVCSILVKRPTGECLPLAVRMGTPATMKIQGKVVAGQLGMLLTGSNAKNMDLGT TPGDCGCPYVYKRGNDYVVVGVHTAAGRGGNTVICAVQTSEGEAVLEGGVDNGTYCGA PIITKGNAPNLSTKTKFWRSSVEPLPPGTYEPAYLGGRDPRVESGPSLQQVMREQIKP FTAPRGRPIKPHLLKAAVETISNVLEQTLDPPVPWTFAQACQSLDKTTSSGWPHHVAK NKHWNGESFTGPLADQASKANLMYEQGKSMVPRYTAALKDELVKPSKIYANIKKRLLW GADLATMIRCARAFGPVTDALKKCCLALPVKVGLNINEEGPIIFEKHAQYKNHYDADY SRWDSTQQREVIKAALEIMVKFTAEPQLAAVVAADLVAPSMLDTGDFVIQINEGLPSG VPCTSQVNSIAHWIYTLTAMAEAADVDPDVIQANSYFSFYGDDEIVSTDLDFDPEVLT LKLRAVGLVPTRPDKTEGPLTVSNKLSGLTFLRRHIVQDNIGYYGRLDKDSITRQLYW TRGPNHQDPSETMHPHANRAIQLMSLLGEAALHGQAFYQKISRIVIKEIKEGGLEFYV PKFEAMFRWMRFSDLSTWEGDRNLAPEYVNEDDV" CDS 5268..6935 /codon_start=1 /product="VP1 capsid protein" /protein_id="AUO60021.1" /translation="MKMTSKDVAPSTDGAANLVPVDQNEVMAIEPVAGAQLAAPVAGQ FNAIDPWIRLNFVQAPNGEFSVSPRNSTGEILLDLELGPELNPFLAHLARMYNAYAGG MEVQVILAGNAFAAGKIIFAAIPPGFPAGAISASQATNFPHVIVDVRQLEPVNLPLPD VRNRLFHFNNEAPEPRMRLVAILYTPLRVGNTGDDVFTVSCRVLTRPSQDFEFMFLVP PTVEQKTTPFSLPDLEVGQMTNSRFPLRIDVMAASPNAQTVIQFQNGRCTIDGTLLGT TLANGAAVCEFNGAYIGSNARAAGEDATDEPDTIEPRSGWSNAFFSLAELDGQAFEPG VGQLAPLGTPDFVATIKGTISRLTPNREQVIAEQNTEEAANAPGLGTARVQYQTNSIT LANNQVVTFRPYGLHGAGRYNQFVLPPYSPGNPSGLAPAVAPDFPSEKVLFFRSDMPC SNHTPSNNWYIDCLLPNEYVSHFYSLAAPRRGDLALVRYINPESNRVLFEAKLHPEGF FTISGANEGPLVFPTNGYFRFDSWVSRFYTLSPVGSGSGRSGRTKAH" CDS 6935..7732 /codon_start=1 /product="VP2 minor structural protein" /protein_id="AUO60022.1" /translation="MAGQVLAGIGADVLGSGLGALIGAGANAINQRVEFGYNQALQQN SFRHDKEMLQAQVQATKQLQAEMIGIKQGVLSAAGFSDSDAARGAVNAPMTKAIDWNG TRYYAPNSMGATSYSGQFTHQVTARQRVQVPERSAPPVQAPQPTPNAPRPQSSAAMSL SSGSWGQPAASRSTESTRLSSTSSSASRVEQWVDEQRSLARDPFMRGALQTAFVTPPS SRASSASSSAGTVSTVPKEVLDSWTPVFNTRRLPVFTHLRRRGESSV" ORIGIN 1 cgacgtctct gctgctgcta gcagtgccaa aaacactact aacaacaaca aaaccaacac 61 cactgcagag gtctataaag actctgcagg gaacccccaa gaagggttct tcgccaacat 121 gaaagttggt gtaaagaagg ctcttggggc tcggccaaaa gaacggccta agccccagga 181 gtcaaaaccc ccggaccagg atcccgcaca acagcaagat gccatcccgt ctatacggga 241 tgccgtcaaa gaactctgtt cagtcatatc tggaaagaac caaccggaga tcgaccaggc 301 acccaacact gattctgccc aggacgtgaa gccacccagt gaagaggaga aagctcgtgt 361 caacatggaa gtagacgaat ttggcaaagt caagtacgtt cgtgaccagg atcagataat 421 tggattgccc aatctccaca ctgttgagat ccccaaggaa cgcagcccta agtgcgtccc 481 accaccggca gaccgggagg ttaaggtccc caaggagccc cccgccggag ctatcctcga 541 gatgtatgat ggtgatttct accactacgc catctatctc gagaggggcc tcattctggg 601 tatcaaccgc ccggggtggg ctctgtccac tgccattgtg aacatcgagc ccattggcct 661 ttggtggcgt gttgtttatg taccaccctt ccaagtctcc cttcccgctc tttaccacct 721 caacggggag aagtttcctt ataatgcttt tgataacaac tgctacaatt tctgttgcca 781 ggtccttgag cttgacgaca gttggctcaa ccgcaagcat gtccagcgca cctcgggttt 841 ctttgaccct taccaaccct ggaacaagaa gccctcagtg cacatccctg acactaagct 901 tgagaaggtg gccgacatgt ttctgacagc cctcggtgcc ctcttctctc gcccaatcaa 961 gaacattatt gggcgcctta agccacttaa tgtgctcaac ctcttgacat catgtgactg 1021 gtcttttgcc agcatagttg agacaatcat cctcctcgcc gagctcttcg gcatttactg 1081 ggaaccacca gatgtgacag ccttcatcat gccgctgctt gaggactttg aactccaggg 1141 gcctgaggac cttgcggccg agctggtccc cgtcattctt gggggcatcg gcatggcgat 1201 tggcttcaca gccgagaagg caggtaaact cctcagctca gccgcctcaa cgctcagggc 1261 gactaaagag attggtaact atggattgga gatattcaaa ctgatcatga agtggttctt 1321 ccccaagaag ggcgacgagg aggccatgaa caatctagtt cgtgggatcg aggaggcggt 1381 gctcgatctc gaggccctag aaaacaacca catgaccaaa ctcctcaaga gcaaagacct 1441 catgtcagcg tacatcaaga ccctcgacgc tgaagaggaa aaggcccgca agctctccac 1501 caaagcctcc tcacctgaca tcgtggccac agttaacgcc ttgttggcca ggatttctgc 1561 cgctcgctcc ctcatccaca aggctaaaga ggagatgtgt tcccgtgtca gacctgttgt 1621 ggtcatggtg tccggtaggc ccggcatagg taaaacccac tatgcgagac atcttgcaga 1681 gcgggtggcc tccacgctcg gaaatgacaa acgagtgggc ctcatccccc gtaatggcgt 1741 tgaccactgg gatgcctacc ggggagagca agtcgtcctc tgggatgatt atggcatggg 1801 taacatcatc aaggacgctc tcacactcca ggagctggct gacacctgcc ccgtgaccct 1861 caactgtgac cgcattgaga ataagggtaa gatgttcgac tctgatgtca ttataataac 1921 aaccaactca cctaacccca gccccatgga ttatgtcaac atggaggcag tagctcgtcg 1981 cgttgacttc ctggtctacg ctgacgctcc tgacatcgag aaggccaaga aagagtgccc 2041 tggtgacccc aaggcatgga aaccacactt taaggatgac cactcacacc taaaactcac 2101 cctcgccccc caaggagggt ttgacaaggc tggaaacaca ccccatggca aaggtgttgt 2161 caaacaagtc acaccaagtg gtctggtcgc ccgagtggct gcactcgtgg ctgaacgccg 2221 cgatgacttc cagctggagg gtggtgagcc taaggtttac aactttgatg cctcccaggt 2281 ctcagccttc cgacgcctgg ctgctgacaa caagtacggc ttggttgaga caatgagagt 2341 tgggaataag ttgcgggggg tcaccaacat ggatcagttc agggcagcca tccgcgatgt 2401 taagttcagc cgatgccgca tcatctacaa gggcatcacc tatgaccttg agtcagatgg 2461 caagggaaaa gttacgattg atcgtgtcca agatcagatg gtgcaacagg tcaacgaggt 2521 gcaccaggca gtcctgcgga tcagacaggc aaggctccgc tactacgttc aagtagctca 2581 agaagtgatc tacagtcttc tgcagactgc cggagccgcc tttgttgtcc acaggatcat 2641 gaaaaggaat ggggacccct ggtcctcctg gaaggctgaa atcaaggcag cccaacctga 2701 gcctgatgag tccagccgag ccccccccaa aaccccctgc tcccagtgtg agaaaccatt 2761 tggacagtgc acatgccgct gggttgtcga gcctgaagac tttgaggatg aaggcaagaa 2821 aggaaagaac aagaaggggc gcggccggaa gcacaccgcc ttctccagta agggcctgag 2881 tgatgaagag tacgatgagt acaagaaaat ccgtgaggag cgcggtggca agtactcaat 2941 ccaagagtac cttgaagacc gagataggta ccaagaggaa gtggcactca ttcaggcatc 3001 tggtggtgat tgcgatgatg taaccttggg tcgcattcgc aacgagatct tccgccccag 3061 caagaaacag cgcaaagagg agcgcagtaa gcttggcctt gtcaccggtc gcgaaatccg 3121 tcagaggaag cccgacgatt tcaaaccgaa gggcaagcta tgggccgatg acgaacggga 3181 gaccgactac aacgagaaga tccaattcga agcgcccgct tctgtctggt cccgcatcgt 3241 ccaattcggc accggctggg cgttttgggt gtcgcctagc ctgcttatca catcaactca 3301 tgtcataccc aagggagtgg aggagatgtt tggcgttcca atcaatcaga tccaagtgca 3361 taagtgtggt gagttctgcc gtctgagatt cccgaaggct atcagaactg acgtctctgg 3421 gatgatcttg gaagatggcg cccctgaagg gacggtctgt agcatcttgg ttaagcgccc 3481 aactggtgaa tgcctcccac ttgccgtccg gatgggaaca cccgccacca tgaaaatcca 3541 aggcaaggtt gtagcgggcc aacttggcat gctgctcact gggtctaacg ctaagaacat 3601 ggaccttggc accactcccg gcgactgtgg ttgtccctac gtctacaagc gtgggaatga 3661 ctacgtggtc gttggcgtcc acaccgcggc tggccgtggg ggcaacactg tcatctgtgc 3721 cgtccagact agcgaaggtg aggctgtact tgaaggaggt gttgacaacg gcacttattg 3781 tggcgcccca atcataacaa aagggaacgc ccccaacctg tccaccaaga caaaattctg 3841 gaggtcctca gtggagcccc tcccacctgg cacttatgag cccgcctatt tgggtggtcg 3901 cgacccccga gtagagtcag ggccttcgct gcagcaggtg atgagggagc aaattaagcc 3961 tttcacggcc cctcgtggga ggcccattaa accacatctc cttaaggctg cagtggaaac 4021 catcagcaac gtgcttgagc aaacattgga cccgccagtc ccctggacct ttgctcaagc 4081 atgccagtcc ctggataaga ccacttcaag cggctggcct caccacgtgg ccaagaacaa 4141 acactggaat ggggagtcct tcaccggtcc ccttgctgac caggcctcca aagctaacct 4201 gatgtatgaa caaggcaaga gtatggttcc aagatacact gctgctctca aggacgaact 4261 cgtcaagccc tccaaaatct atgctaacat caagaagagg ctactctggg gtgccgacct 4321 cgcaaccatg attcgttgcg cgcgtgcctt cgggccggtc acagacgcat tgaagaagtg 4381 ctgtctcgcg ctcccagtga aagttgggtt gaacatcaat gaggagggcc ccattatctt 4441 tgaaaagcat gcccaataca agaaccatta tgacgctgac tactccaggt gggattcaac 4501 acaacagcgg gaagtcatta aggcggcact tgaaatcatg gtgaaattca cagcggaacc 4561 acaattggct gcggtggtgg ctgctgatct ggttgcacca agcatgctag acactgggga 4621 tttcgtcatc caaattaatg aaggcttacc ttcgggggtg ccctgcacat ctcaggtcaa 4681 cagtattgcc cattggattt atacactcac cgccatggca gaagccgccg atgtggaccc 4741 tgatgtcatc caggctaaca gttacttctc cttctatggt gatgatgaga ttgtttccac 4801 cgatttggac tttgatcccg aggtgcttac cctgaagctt cgcgcagtag ggctggtgcc 4861 gacgagaccc gataaaactg aaggaccgct gaccgtttcc aataagttga gtgggctcac 4921 ctttctgagg aggcacattg tgcaggacaa cattggctat tatggccgcc tagacaagga 4981 ttcaattacc agacaactct attggacccg aggccccaat catcaggatc cctctgaaac 5041 gatgcaccca catgcaaata gagcaattca gttgatgtcc ctcctaggag aagccgcctt 5101 gcacggccag gccttctacc agaaaatcag cagaatagtc atcaaagaga tcaaagaagg 5161 tggcttggag ttttacgtgc ccaagtttga agccatgttc cgctggatgc ggttttctga 5221 cctcagcacg tgggagggtg atcgcaatct cgctcccgag tacgtgaatg aagatgacgt 5281 ctaaggacgt cgctccatct acggatggcg ctgccaacct cgtcccagtg gatcaaaatg 5341 aggttatggc tattgaacca gttgccggcg ctcaattggc tgcccccgtc gccggtcaat 5401 ttaatgcaat agatccctgg attagattaa attttgttca agcccccaac ggagagttct 5461 ccgtttcacc ccgtaattca accggggaga tccttcttga tttggaatta ggacctgaat 5521 tgaatccctt tcttgcccat ctagctagaa tgtataatgc ttatgccggt ggcatggagg 5581 ttcaggtgat ccttgcgggg aatgcgttcg ccgcaggtaa aatcatcttt gccgcaatac 5641 cacctggctt cccagctggt gctatttctg cttctcaggc aacaaatttt ccccatgtga 5701 ttgttgatgt ccgccagctt gagccagtca acctgcccct cccagatgtt cgcaatcgcc 5761 tttttcattt caataatgaa gcccctgagc ccaggatgag acttgtggcc atcctctata 5821 cgcctctccg cgtggggaat actggtgatg atgtctttac tgtctcctgt cgcgtgctga 5881 cacgcccttc tcaagacttt gaattcatgt ttctagtccc tcccactgtt gagcaaaaga 5941 ccacaccttt ctctttgcct gatctcgagg tggggcagat gaccaattct cggtttccgc 6001 tccgcatcga tgtgatggct gcgtccccca atgctcagac agtcatacaa ttccaaaatg 6061 gccggtgcac gatcgatggc accctccttg gcaccaccct tgccaacggt gcggcggtgt 6121 gcgaattcaa cggggcctac ataggttcca acgcacgcgc tgccggggag gacgccactg 6181 atgagccgga cacaattgag cctagaagtg gatggtctaa tgctttcttt tctcttgctg 6241 agcttgatgg ccaggccttt gaaccaggtg tgggtcaact cgccccactg ggcacccctg 6301 attttgtggc aaccatcaaa gggacaatat cccgcctgac accaaatagg gaacaggtca 6361 tcgcagagca aaacaccgag gaggccgcta acgcccccgg attgggcact gcaagggtcc 6421 agtaccagac caactccatc acactggcca acaatcaggt ggtgaccttc aggccctatg 6481 gcctgcatgg tgctggccgc tacaaccagt ttgtcctacc cccttactct ccaggcaacc 6541 catctggtct tgcgcccgct gtggctcctg attttccttc agagaaagtt cttttctttc 6601 gcagtgatat gccttgttcc aatcatactc cctctaataa ttggtatatt gattgcttgc 6661 ttccgaatga atatgtttct catttctatt cccttgccgc gccccggcgt ggtgaccttg 6721 ccctggtgcg ctacatcaac ccagaatcca acagggtcct cttcgaggcc aagctgcacc 6781 ctgaaggctt cttcaccatc tctggtgcaa atgagggccc cttagtcttt ccaacaaatg 6841 gctacttccg gtttgattcc tgggtttcca gattctacac tctcagccct gtgggaagcg 6901 gctctggccg aagtgggcgc accaaggctc actaatggcg ggacaggtcc tcgcaggcat 6961 tggagccgac gtgctcggtt ccggtcttgg cgccttgatt ggcgcagggg ccaatgcaat 7021 aaatcagaga gtggaatttg gctacaacca agccctgcag caaaactcct ttcgccatga 7081 caaggagatg ctccaggccc aggtgcaggc cacaaagcag cttcaagccg agatgatcgg 7141 catcaaacag ggtgtcctca gcgctgcggg attttcggat tccgatgccg ccagaggagc 7201 agtcaatgcc cccatgacaa aggccattga ctggaacggc accaggtatt atgcccccaa 7261 ctccatgggg gccacatctt actctggcca gttcacacac caagtgaccg caaggcaaag 7321 ggtgcaagtc ccagagcgct cggcgccacc ggttcaggct ccccagccta cgccgaacgc 7381 gccgagacct cagtcgagtg cggcaatgtc cctttcctca gggagttggg gccagccagc 7441 cgcctcaaga agcacggagt caacccgtct ctcttccaca agctcctcag catcaagagt 7501 tgagcagtgg gtagatgagc agcgctctct cgcgcgcgac cccttcatga ggggtgcact 7561 ccagactgct tttgtgacac caccaagcag tcgtgcttcc agcgcttcct ctagcgcggg 7621 caccgtctct acggtcccaa aggaggttct tgactcttgg acgcctgtct ttaacacgcg 7681 tcgacttcct gtctttactc accttcgcag gaggggtgag tcctctgtat gagccgcggc 7741 cacgccgagt aggatcgagg gtacagctca ttttcctcct tttataggtt tttaggtttt 7801 taggtttatc actaatgata agttttcctt gattcttgta attctgtgaa atgtaattgt 7861 tttctttgat cactgaattc aatttggcat ttaaaaaaaa //