Typing tool
|
Complete norovirus genomes
MN996300 | GII.17 | ||
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GII.P17 |
ORF1: 1..5013 ORF2: 4994..6616 ORF3: 6616..7395LOCUS MN996300 7395 bp RNA linear VRL 15-JUL-2020 DEFINITION Norovirus GII isolate SCD0162_3 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MN996300 VERSION MN996300.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7395) AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q. TITLE Whole Genome Analysis for Co-Infected Different Genotypes of Human Norovirus JOURNAL Unpublished REFERENCE 2 (bases 1 to 7395) AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q. TITLE Direct Submission JOURNAL Submitted (28-JAN-2020) School of Agriculture & Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd. Minhang Dist, Shanghai 200240, China COMMENT ##Assembly-Data-START## Assembly Method :: CLC genomics workbench v. 12 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7395 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="SCD0162_3" /isolation_source="asal swab" /host="Homo sapiens" /db_xref="taxon:122929" /country="China: Shanghai" /collection_date="18-Feb-2018" /note="genotype: GII.17[P17]" gene <1..5013 /gene="ORF1" CDS <1..5013 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QHQ73458.1" /translation="MSVTFKKALGARSKQPPPGETKQIQKPPRPPTPELVKRIPPPPP NGEDEPGIVYKVGEGVSGLPDLTTVVQPDAQNTAYSVPPLSQREVGEAKEPLPGSILE MWDGEIYHYGLYVERGNVLGVHKPPAAISLAKIEITPLSLYWRVVYTPQYLIDPGTLK NLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFKPYQDWNRKPLPTMD EPKIKKAANAVLCALSSLFTRPIKDIIGNLRPLNILNILATCDWTFAGIVESLILLAE LFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVELVPVVMGGVGLVLGFTKEKIGKMLS SAATTLRACKDLGSYGLEILKLVMKWFFPKKEEANELAMVRAIEDAVLDLEAIENNHM TTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLARIAAARSLVHKAK EELSSRQRPVVVMISGRPGIGKTHLARELAKKVASTLSGDQRIGLVPRNGVDHWDAYK GERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLAN PAPLDYVNFEACSRRIDFLVYADAPDIEKAKRDFPGQPDMWKDHFRPDFSHIKLQLAP QGGFDKNGNTPHGKGVVKSLTIGSLIARASGLLHERMDEFELQGSDLPTFNFDRNKVA AFRQLAAENKYGLMDTLRVGNQLKNVKTLDELKQAIKNISIKKCQIVYNGCTYTMESD GRGKVVVEKVQNATVQTNNELVGALHHLRSARIRYYVKCFQEAIYSLLQIAGAAFVTS RIVRRMNVSNLWSKPPIEEGDEPEDRGGCPKPRDEDDLTIDSRDIKVEGKKGKNKSGR GKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEELAIAKATEEDFC EEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKPKGKLWADDNRSVDY NERIDFEAPPSVWSRIVNFGTGWGFWVSPSLFITSTHVIPKGITEAFGVPINQIQIHK SGEFCRLRFPKPIRPDVSGMILEEGAPEGTVVSILIKRTTGELMPLAVRMGTHATMKI QGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDFVVIGVHTAAARGGNTV ICATQGSEGEATLEGGDNKGTYCGAPILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPA YLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNPNVLESAKKTIINVLEQTIDPPQ KWSYAQACASLDKTTSSGYPHHVRKNDYWSGESFTGKLADQASKANLMYEEGKHMQPV YTAALKDELVKTDKIYGKIKKRLLWGSDLSTMIRCARAFGGLMDEFKANCITLPVRVG MNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLEAALEIMVRFSAEPQLAQIVA EDLLSPSVVDVGDFKIAINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTGLGPDIIQA NSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLNGLTFLR RTVTRDPAGWFGKLDQNSILRQLYWTRGPNHEDPSETMIPHAQRPVQLMALLGESSLH GPSFYSKVSKLVISELKEGGMDFYVPRQESMFRWMRFSDLSTWEGDRNLAPSFVNEDG VE" mat_peptide <1..903 /gene="ORF1" /product="p48" mat_peptide 904..2001 /gene="ORF1" /product="NTPase" mat_peptide 2002..2538 /gene="ORF1" /product="p22" mat_peptide 2539..2937 /gene="ORF1" /product="VPg" mat_peptide 2938..3480 /gene="ORF1" /product="Pro" mat_peptide 3481..5010 /gene="ORF1" /product="RdRp" gene 4994..6616 /gene="ORF2" CDS 4994..6616 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QHQ73459.1" /translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM VSQRNVGSDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ" gene 6616..7395 /gene="ORF3" CDS 6616..7395 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QHQ73460.1" /translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSTYTQST HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV" ORIGIN 1 atgtctgtca cctttaagaa agccctcggg gcgcggtcta aacaaccgcc cccgggagaa 61 acaaaacaaa tacaaaaacc accaaggcca ccgacaccgg aattggtgaa gagaatacct 121 ccacccccac ccaatggcga ggatgaacca gggatagtgt acaaggtggg agagggtgtg 181 tctgggctgc ccgacctgac aactgtggta caacctgacg cacaaaacac agcttatagt 241 gttcccccac ttagccagag agaagtcggc gaagctaaag aaccgctgcc tggctccatt 301 ctggaaatgt gggatggtga gatctaccac tatgggctgt atgttgagcg ggggaatgtg 361 ctcggagtac acaaaccacc cgctgcaata agccttgcca aaattgaaat aacaccgctg 421 tctctctact ggagagtggt ctacactccc cagtatttga tagatccagg aactcttaag 481 aacttgagtg gagagacttt cccatacacg gcctttgaca acaactgtta tgccttctgt 541 tgttgggtcc tagacctcaa cgactcctgg cttagcagga gaatgatcca aagaacaact 601 ggattcttca aaccttacca ggattggaac agaaaaccct taccaaccat ggatgaaccg 661 aaaatcaaga aggccgcgaa tgctgtccta tgcgctctct cctcactctt cactaggccc 721 attaaggaca tcattggaaa tcttagacca ctgaacattc ttaatatact ggcaacctgc 781 gattggactt ttgcaggcat agtggaatcc ttgatccttc ttgctgaact ctttggggtg 841 ttctggacac ccccagatgt gtctgcgatg attgctccct tactcggtga ctacgagatg 901 caaggccccg aagacctggc cgtggaactt gtgcccgtgg tgatgggagg agtaggtttg 961 gtgttaggat tcaccaaaga aaagatcggc aagatgcttt catcagctgc gaccacactt 1021 agggcctgca aggatctagg atcttatgga ttggagatac tcaaattggt catgaagtgg 1081 ttcttcccca agaaggagga ggctaacgaa ctagccatgg tgagagccat tgaggatgca 1141 gtcctggatt tggaggcaat agaaaacaat cacatgacca cccttctcaa ggacaaagac 1201 agcctggcca catacatgag gactcttgac ttggaagaag agaaagcaag gaaactgtca 1261 accaaatcgg cgtcacctga catcgtgggt acaataaacg cattattggc taggatagca 1321 gccgccaggt cactggtcca caaggctaag gaggagctct cgagcagaca gagacctgtt 1381 gttgtaatga tatcaggtag accaggtata ggaaagaccc atctggccag agagctagcc 1441 aagaaagttg cgtcaacact gtcaggcgac caaaggattg gactggtacc tagaaatggc 1501 gtcgaccatt gggacgccta caagggagaa agggtggttc tgtgggatga ttatggtatg 1561 agcaacccta tacaggacgc actgaggctc caagaattgg ctgacacctg tcctctgacc 1621 ctaaattgtg ataggattga aaacaaagga aaagtgttcg acagtgatgc cataattata 1681 acaaccaacc ttgcaaaccc agcaccacta gactatgtca actttgaggc ctgctctaga 1741 cgcatagact tcttggtgta tgcagacgca cctgacattg agaaggctaa gcgtgacttc 1801 cctggccaac cagatatgtg gaaagaccat ttcagaccag acttctcaca cattaaactt 1861 cagctggcac cacagggagg ttttgacaaa aatggcaaca ccccacatgg taaaggtgtg 1921 gtgaagtccc tgacgattgg ttctctgatc gccagggcct ccggcttgct ccacgagaga 1981 atggatgaat tcgagctcca aggctctgac ctgccaacct tcaattttga ccgcaacaaa 2041 gtcgccgcct tcagacaatt agcagctgaa aacaaatatg gtcttatgga cacactgagg 2101 gtcggcaacc aactgaaaaa tgttaagacc ctggatgagc tgaagcaggc cataaagaac 2161 atcagtatca agaagtgtca gatagtgtat aatggatgca cctatactat ggaatctgat 2221 gggaggggca aggttgtggt tgaaaaggta caaaacgcaa cagttcaaac caacaatgaa 2281 cttgtagggg cgctccacca cctgagatct gcaaggataa gatactatgt taaatgtttc 2341 caagaagcca tttactctct actccaaatt gctggtgcag ccttcgtcac ctcacgcatc 2401 gtgaggcgca tgaacgtgtc aaacctctgg tcgaagccac ccatcgagga aggtgatgag 2461 cctgaagaca gaggaggatg ccccaagccc agggatgaag atgacctcac tattgactct 2521 agagacatca aagtggaagg gaagaagggc aagaacaagt ctggccgggg caagaaacac 2581 acagccttct cttccaaggg cctcagtgat gaagagtacg atgagtacaa aagaatcaga 2641 gaggagagga atggtaaata ctcaatagag gaatacctcc aagataggga cagatactat 2701 gaagagcttg ccattgctaa ggccactgag gaggacttct gtgaggagga ggagatcaaa 2761 atccgccaga gaatcttccg acccaccagg aagcagcgga aagaggagag ggccacgctt 2821 gggcttgtca caggatcgga aatcagaaag aggaatccag atgactttaa accaaaagga 2881 aaattgtggg ctgatgacaa caggagcgtg gattacaatg agaggataga ttttgaggct 2941 cccccgagtg tttggtctag gatagtcaac tttggcacag gctggggatt ctgggtttct 3001 ccaagtctct ttataacttc aacacacgtc ataccaaaag gaatcactga ggcctttgga 3061 gtgcccataa accaaatcca aattcacaaa tctggagaat tttgccgctt gcggtttcca 3121 aagccaatta gaccagacgt gagtgggatg atcttggaag agggcgcccc tgaaggcact 3181 gttgtgtcta ttctcatcaa aaggacaaca ggggagctaa tgcctcttgc agtcagaatg 3241 gggactcatg ccacaatgaa aatccaaggt agaacggtgg gtggtcagat gggtatgctt 3301 ctcactggct caaatgctaa aagcatggac ctaggcacaa caccaggtga ctgcggatgt 3361 ccatacatat acaaaagggg caatgacttt gtggtcattg gggtgcacac tgcagcggct 3421 cgtggaggca acacggtcat atgtgccaca cagggaagtg aaggtgaagc cactcttgaa 3481 ggaggtgata acaagggtac atattgtgga gctcccattt tgggacctgg caatgcacca 3541 aaactgagca caaagacgaa attctggaga tcctctaacg caccgcttcc cccaggtact 3601 tatgaaccag cataccttgg tggaagagac ccgcgcgtga agggaggccc atctctgcaa 3661 caagttatga gagaccaact taaacctttt acagagccca gagggaagcc accaaaccca 3721 aacgtcttag agtcagcaaa gaagactatc atcaatgttc tggaacaaac cattgacccc 3781 cctcaaaagt ggtcatatgc ccaagcttgt gcatccctcg acaagacaac ctccagtgga 3841 tacccgcacc acgtccggaa gaatgactat tggagtggtg aatccttcac aggaaagctt 3901 gcagatcagg cttcaaaagc aaatctcatg tatgaggaag gcaagcacat gcaaccagtt 3961 tacaccgcag cactcaaaga cgagctcgtg aaaactgaca aaatttatgg caaaatcaag 4021 aaaagactcc tgtggggttc tgacctctcc acaatgattc gatgcgccag agcatttggt 4081 ggtctcatgg atgaattcaa agcaaattgt attacactcc ctgtcagagt tggtatgaat 4141 atgaatgaag atggtcccat aatatttgag aaacactcca ggtataggta ccactatgat 4201 gctgattact cccgttggga ctccacacaa cagcgggcag tgctggaagc ggcacttgaa 4261 atcatggtga gattttctgc tgaaccacag ctggcacaaa tagtggcaga ggacctgctg 4321 tcaccaagtg tggttgatgt gggcgatttc aaaatcgcta tcaatgaagg cctaccatct 4381 ggcgtgcctt gcacctcaca atggaattct attgcccact ggttgcttac cttgtgtgcc 4441 ctttctgaag tgacaggatt aggtcctgac atcatacaag ctaactccat gtactctttc 4501 tatggtgatg atgagattgt gagcacagac ataaaattgg acccagagaa attgaccgca 4561 aagctcaaag agtatggcct taaacccact cggcccgaca aaactgaggg gccgttggtg 4621 attagtgagg acctaaacgg gttgactttc ctccgccgaa cagtcacccg tgatccagca 4681 ggttggtttg gaaagttgga ccaaaactcc atcctcaggc agttgtactg gacaagagga 4741 cccaaccatg aagaccccag tgagaccatg ataccacacg cacaaagacc tgtgcagctc 4801 atggcactac taggagaatc ctccctacat ggaccctcat tttacagcaa ggttagcaaa 4861 ttagtcatat ctgaacttaa agagggagga atggattttt atgtgcccag acaagagtca 4921 atgttcagat ggatgaggtt ctcagatcta agcacatggg agggcgatcg caatctggct 4981 cccagttttg tgaatgaaga tggcgtcgaa tgacgccgct ccatctaatg atggtgctgc 5041 tggtctcgta ccagagggca acaacgagac ccttccccta gaaccagttg cgggcgcagc 5101 tatagccgca cccgtcactg gccaaaataa cataattgac ccctggatta gaacaaattt 5161 tgtgcaagca ccaaatggag agttcacagt atcacccaga aactctcctg gagaaatttt 5221 attaaactta gagttgggtc ctgatttgaa cccttatttg gctcatttgt caaggatgta 5281 caatgggtat gctggtggag tggaagttca ggttctcctg gcagggaacg cgttcactgc 5341 cggaaagatc ctcttcgccg ctgtcccgcc aaatttccca gtggaattct taagcccagc 5401 ccagatcaca atgctcccac atttaatagt agatgttagg actcttgaac caattatgat 5461 cccactccct gatgttagga atacattctt ccattatagt aaccagccga acagccgcat 5521 gagattagtg gctatgctct ataccccact taggtctaat ggctcaggtg atgatgtctt 5581 tactgtctct tgcagggttt tgactaggcc tactcctgat tttgagttca cttatctagt 5641 gccaccttct gttgaatcta aaactaagcc tttttccttg cctattttaa ccctttctga 5701 gcttacaaat tcgaggttcc cagttcccat cgattcgctt ttcaccgccc agaataacgt 5761 gttgcaggtg cagtgtcaaa atggcaggtg tacacttgat ggtgagttac aaggcacaac 5821 ccagttgctc ccatctggca tctgtgcatt cagaggacgg gtgacagcac aaattaacca 5881 acgtgacagg tggcacatgc aactgcaaaa cctcaatggt acaacatatg acccaactga 5941 tgatgtgcca gccccgctgg gtacacctga cttcaagggc gtcgtgtttg ggatggttag 6001 ccaaagaaat gtgggtagtg atgcgcctgg ctcaaccaga gcccaacagg cgtgggtttc 6061 aacctatagc ccccaatttg tccccaaatt aggttctgtc aatcttagaa ttagtgataa 6121 tgatgatttc caattccaac cgacaaaatt cacaccagtg ggcgtcaatg atgacgatga 6181 tggccacccg ttcagacaat gggaactacc aaactattca ggggagctta ccttgaatat 6241 gaatcttgcc cccccagttg ctccaaattt tcctggtgaa caattgttat tcttcagatc 6301 tttcgtgcca tgctcaggag gttacaacca aggtattata gattgtctta ttccccaaga 6361 atggatccaa cacttctatc aggaatcagc accctcccag tcagacgtgg ccctaatcag 6421 gtatgtcaac cccgatacgg gacgtacact gtttgaagca aaattgcaca gatctggtta 6481 tattactgtg gctcactctg gagactatcc tcttgttgtt ccggctaatg gacactttag 6541 atttgattct tgggtaaatc agttttactc actcgcccca atgggaactg ggaatgggcg 6601 taggagggct cagtaatggc tggggctttc attgcagggt tggcaggcga catgctcacg 6661 tcatctgtgg gctcccttgt gaacgcaggg gcaaacgcca tcaatcaaaa gatagacttt 6721 gaaaacaaca aacaactcca gtctgcttcc tttcagcatg ataaagagat gctccaagcg 6781 caggtgaggg caaccaagca gctgcaatct gaaatgatag ccctaaaaca gggggttttg 6841 gccgcaggcg gcttttcccc cactgatgca gcaaggggat ccattggtgc ccccatgaca 6901 aaggtgcttg actggtctgg cactcgatac tgggcgccca attccacaaa gacaactggc 6961 tattcgggac aattcacctc ttcacctgtg catatgtcta gcccaaatgc tccacaatca 7021 aaacctgcaa agcctaggtc tctagctcct tcctcttctt ctagcagtgt ctatagtacg 7081 tatactcaat ctactcattt gacatctggc tcttctagta atgcttcttc tgcctccaca 7141 aaattgacaa atttaagctc tggctcctct caaaacagaa cagcagagtg ggtaaatcaa 7201 cagagaagtc ttagcccttt catgagtggc gcacttaaca tctcacatgt cacgccaccc 7261 tcaagtaggg cttccagttc tgggacggtc tcgaccgtgc ccaaggaagt tttggactcc 7321 tggacgtctg cgtttaacac acacagacag ccgctcttcg cgcacctcag agtgaggggg 7381 gagtcacgtg tttag //