Typing tool
|
Complete norovirus genomes
MN996298 | GII.8 | ||
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GII.P8 |
ORF1: 1..4692 ORF2: 4673..6286 ORF3: 6286..7059LOCUS MN996298 7064 bp RNA linear VRL 15-JUL-2020 DEFINITION Norovirus GII isolate SCD1061_4 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MN996298 VERSION MN996298.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7064) 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Liu,D., Zhang,Z. and Wu,Q. TITLE Whole Genome Analysis for Co-Infected Different Genotypes of Human Norovirus JOURNAL Unpublished REFERENCE 2 (bases 1 to 7064) AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q. TITLE Direct Submission JOURNAL Submitted (28-JAN-2020) School of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..7064 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="SCD1061_4" /isolation_source="asal swab" /host="Homo sapiens" /db_xref="taxon:122929" /country="China: Shanghai" /collection_date="18-Feb-2018" /note="genotype: GII.8[P8]" gene <1..4692 /gene="ORF1" CDS <1..4692 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QHQ73452.1" /translation="MWDGEFYHYAIYVSGGKAIGVHKPPAAISLATIELTPISLYWRP VYVPNYLVHPDTLKSLAGEKFPYTAFSNNCYNFCCWVLDLKDSWLNRRSITRTTGFFK PYQSWNKKPLPTVDDGKIKKVANAVLCALGSLFSKPIKDLIGKLKPLNFLNLLASCDW TFSGVVETVILAAELFGVFWTPPDVSNFIASLVGDFELQGPEDLAVELVPIIMGGIGM VLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEMETLRAIE DAVLDMEAIGNNHLTALLKDRDSLLTYMKTLDLEEEKARKLSTKSSSPDIVGTINAIL ARIAAARSLLHRAKEEMYSRPRPVVVMISGRPGVGKTHMARHLAKSVAGTMSGDQRVG LIPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALALQELADTCPVTLNCDRIENKGKM FDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPTIEKAKKDFPGQPDMWKEH FKADFSHLKLTLAPQGGFDKNGNTPHGKGTMKTLTQGSLTARVAGLVHERKDEFQLQG GELQVYNFDTNKVSAFRKLAADNNYGFLETMRVGSSLKDVKTVEDLKCALKSVSFKEC EIIYRNVKYRISSDGCGKVSIEKLADNNSQTTREIVTAVTRLRQARARYYISCFQDLV YTLLQVAGASFVINRIVKKFNWERWVKAPETDEPTPGNGKPDTEEDWEIAPKDVDSEG KKGKNKKGRGRKHTAFSSKGLSDEEYDEFKRLREEKQGRYTIEEYLHDRDRYYEELAV ARATEENFCEEEEIKIRQRIFRPTKKQRKEERGVLGLVTGADIRKRKPDDFQPKGKLW ADDSRSVDYNEKIEFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKGIKELFGV DIKQVQVHKSGEFCRFRFPKPVRPDVSGLVLEEGAPEGTVCSVLIKRSTGEMIPLAVR MGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDIVVAGVHT AAARGGNTVICATQGPDGEAVLEGGEDHGTYCGAPILAPGKAPKLSTKTKFWRSSPDS LPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPSVLEEAKKTVMNV LEQTIEPAKPWTYSQACASLDKTTSSGSPHHVRKNEHWNGESFTGPLADQASKANLMY EEGKHMDPMYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMVRCARAFGGLLDSMKES CISLPCRVGMNINEDGPLIFEKHSKYTYHYDADYSRWDSTQQRAVLSAAMEVMVKFSA EPELAQVVAEDLLAPSRLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTLSAMSEVS GLSPEVVQANSCFSFYGDDEIVSTDINLDPEKLTRKLREYGLVPTRPDKTEGPLVITQ DLNGLTFLRRTIVRDPAGWFGKLDRDSILRQLYWTRGPNHENPFESMIPHSQRATQLM ALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLSTWEGDRNL APENVNEDGVE" mat_peptide <1..597 /gene="ORF1" /product="p48" mat_peptide 598..1695 /gene="ORF1" /product="NTPase" mat_peptide 1696..2217 /gene="ORF1" /product="p22" mat_peptide 2218..2616 /gene="ORF1" /product="VPg" mat_peptide 2617..3159 /gene="ORF1" /product="Pro" mat_peptide 3160..4689 /gene="ORF1" /product="RdRp" gene 4673..6286 /gene="ORF2" CDS 4673..6286 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QHQ73453.1" /translation="MKMASNDAAPSNDGAAGLVPEINHEVMAIEPVAGASLAAPVVGQ LNIIDPWIRNNFVQAPAGEFTVSPRNAPGEFLLDLELGPELNPYLAHLARMYNGHAGG MEVQIVLAGNAFTAGKILFAVIPPGFPYENLSPAQLTMCPHVVVDVRQLEPILLPMPD IRNTFFHYNQSNGPKLRLVAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFEFNFLVPP SVESKTKAFTLPILKISEMTNSRFPIPVDQMYTSRNENIVVQPQNGRVTLDGELQGTT TLQPVSICGFRGTLQTRLADQPNYTYQVHLENLDGSPVDPTDEVPAPLGTPDFQAQLF GVVSQRSSDNATRAHEARVNTNDPTFAPQIAQVRFKSPSHDFFDNEPIKFTPVGISVD SENSYNQWLLPRYGGHLTNNTHLAPSVSPMFPGEQILFFRSFMPGASGHTDGAIDCLL PQEWVAHFYQEAATAQTDVALIRFVNPDTGRVLFEGKLHKQGFITISNSGDHPIVMPA NGYFRFEAWVNQFYSLAPVGTGSGRRRVQ" gene 6286..7059 /gene="ORF3" CDS 6286..7059 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QHQ73454.1" /translation="MAGAFLAGLAGDVVTSGIGSLINAGANAVNQKVEYDFNRQLQEA SFKHDKEMLNAQINATTKLQRDMIAIKHGVLTAGGFSPTDAARGSINAPTTKILDWNG SRYWAPGSMRTTAYSGNFISQGVKQPTPIVRSVKPQVQQSPAPSSVYSVGSVRSQSTQ STQLTGSGTVSRAPTPSTITTLSRTSEWVRSQNDRLSPFMGGALQTAFITPPSSKASS SSGTVSTVPREILDSWTPAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 atgtgggatg gtgagttcta ccattatgcg atatatgtct ctggtggcaa ggccataggg 61 gtgcacaaac ccccagccgc aatcagcctt gccactatcg agcttacacc tatatcgctt 121 tactggaggc ccgtttatgt ccctaattac ttggtccacc ctgacacact caagagctta 181 gctggtgaaa aatttccata caccgcattt agcaacaatt gttacaattt ctgttgctgg 241 gttcttgacc tgaaagactc gtggctcaac cgcagatcaa taactagaac aaccggtttc 301 ttcaagcctt atcaatcctg gaacaagaaa ccacttccga cggtggatga tggaaaaatc 361 aagaaagtcg ccaatgcagt cctgtgcgcc cttggttcac tattctcaaa acctattaag 421 gacttgatcg ggaagctgaa gccactgaat ttcttgaatc tcctcgcttc gtgcgactgg 481 accttctccg gagtggttga gaccgtcata ctagctgctg agctgtttgg tgtgttttgg 541 accccccccg acgtgtcgaa tttcatcgcg tcactcgtcg gggattttga gctgcagggt 601 ccagaggatt tagctgtgga gttggtaccg atcatcatgg gcggtatcgg gatggtgctg 661 ggattcaccg ccgagaagat cggccgaatg ctatcatcag ctgcatcgac ccttagggcc 721 tgtaaagacc taggcaacta cgcccttgac atacttaaat tggtcatgaa gtggttcttc 781 ccaaagaagg aggaaaaggc agagatggaa accttgaggg ctatagagga tgctgtctta 841 gacatggagg cgattggaaa caatcacctc actgctctgt tgaaagacag ggacagcctc 901 ctaacttaca tgaagactct agaccttgaa gaagaaaagg cgagaaagct gtccacaaag 961 tcatcgtccc ctgacatcgt gggtaccatc aatgccatac tagccagaat tgccgcggct 1021 aggtctctcc tgcacagagc caaggaagaa atgtacagca gacctaggcc tgtcgtggtg 1081 atgatatcag gaagaccagg ggttggtaag acccatatgg ctagacacct cgccaagagc 1141 gtggcgggca ccatgagcgg tgaccaaagg gtgggcctca tcccccgcaa tggagttgat 1201 cattgggatg cctacagggg agaacgagtt gtcttgtggg acgactatgg catgggtaac 1261 ccagtgaagg atgccctcgc tctgcaagaa ctagcagaca cttgtccagt caccctcaat 1321 tgtgacagga tagagaataa ggggaagatg tttgacagcg aggtaataat cataacaact 1381 aatttggcca accccgcccc gcttgattat gtcaactttg aagcttgttc ccgcagaatc 1441 gacttcctcg tctacgcaga agccccgacc attgagaagg cgaagaagga ttttcccggg 1501 caaccagaca tgtggaagga gcacttcaaa gcagacttct ctcatctcaa actcacactg 1561 gccccgcaag gcggttttga caagaacggc aacacgccac atgggaaggg gactatgaag 1621 accttaacac agggttccct cacagcaaga gtggctgggc ttgtgcacga aaggaaagat 1681 gagtttcagt tacagggtgg agaattgcag gtctacaatt ttgacacaaa caaggtatcg 1741 gctttcagga agcttgctgc agacaacaac tatgggttcc tggagacaat gagagtcggc 1801 tcctcactca aggacgtcaa gacagtggaa gatcttaaat gtgcccttaa gagtgtcagt 1861 ttcaaagaat gtgaaataat ctataggaat gttaagtacc gcatatcatc agacggttgc 1921 ggtaaggtca gcatagagaa actggcagat aacaactccc aaacaaccag agagattgtc 1981 acggccgtca ctagactacg acaagctcgt gctaggtatt acatcagctg cttccaagac 2041 ctagtctaca cactcttgca ggttgccgga gcctcatttg tcattaacag aatagtcaag 2101 aagttcaact gggaacgatg ggtcaaggct ccagaaacag atgaacccac accaggtaat 2161 ggcaagcccg acactgaaga ggattgggag atcgccccca aagatgtgga ctctgagggt 2221 aaaaagggga agaacaagaa gggcagggga cgtaagcaca ctgcattctc cagcaaaggg 2281 cttagtgatg aggagtatga tgaattcaaa agactaaggg aagagaaaca gggccgctac 2341 acaatagagg agtacctcca tgacagggac cggtactatg aagagctggc agtggcccgg 2401 gccactgagg agaacttctg tgaagaggaa gagataaaga tcaggcaaag gatattccgc 2461 cccaccaaaa agcagaggaa agaggagcgc ggggttctgg gactcgtcac aggagcagac 2521 atcaggaaac ggaaacccga tgacttccaa ccaaaaggaa aattgtgggc agatgattct 2581 aggagcgtcg attacaatga gaagatcgag tttgaagctc ctcctagcgt ctggtcaaga 2641 atcgtcccgc ttgggactgg ttggggattc tgggtctcat ccaacttact aattaccacc 2701 acacatgtgc tgcccaaagg tattaaagag ctttttgggg tggacatcaa acaagtccaa 2761 gttcacaaat caggtgaatt ttgcagattc aggttcccaa aaccagtgag gccagatgtc 2821 tctgggttgg tgttagaaga aggggccccc gaaggcacag tgtgctctgt tctcatcaag 2881 aggtctacag gagagatgat cccccttgca gttaggatgg gcacccacgc ctctatgaag 2941 attcaggggc gcactgttgg cggccagatg ggcatgctgc tcactggagc caacgctaag 3001 aacatggatt tgggtaccgg ccccggggat tgtggttgcc cgtatatata caagaggggc 3061 aatgacatcg tggtggccgg cgtccacaca gcagcagcgc gcgggggcaa cacggtcatt 3121 tgcgcaaccc aaggacctga tggtgaggca gtgttggaag ggggagagga ccacggtact 3181 tactgtggag ccccaatact ggcccctggt aaagcgccga agcttagcac aaagaccaag 3241 ttttggcgct catcccctga ttcccttccc cctgggacgt atgaaccagc ttaccttggg 3301 ggcaaggacc cccgtgtgga gaaagggccg tcactccaac aagtgatgcg agaccaactc 3361 aaacccttca cagagcccag gggcaagcca cctaggccgt cagtgctgga ggaagccaag 3421 aagacagtca tgaatgtgct ggagcagacc atagaaccag ctaagccatg gacctactct 3481 caagcctgtg cttcattgga taaaacaaca tccagtggca gtccccacca tgtcaggaag 3541 aatgaacact ggaacgggga gtcttttact gggcctcttg cagatcaagc ctcaaaagcc 3601 aacctgatgt atgaggaagg taaacatatg gaccctatgt acacagcagc cctcaaggat 3661 gagctggtaa aaactgacaa aatttataag aaaatcaaga agaggctgtt atgggggtct 3721 gatctgggga caatggtgag gtgtgctcga gcgtttggag gattgctcga cagcatgaaa 3781 gagagttgca tttccttacc ttgtagggtt ggcatgaaca taaatgaaga tggaccactc 3841 atatttgaaa aacattccaa atacacctat cactatgatg ctgattactc taggtgggac 3901 tcaacacaac agagggctgt actgagtgca gctatggagg taatggtgaa gttctccgct 3961 gagccggaac tggctcaggt ggttgccgaa gacctccttg cacccagccg tcttgacgtg 4021 ggtgactttg tcatctctgt tcaagaaggt ctcccatcgg gtgtcccctg tacgtcacag 4081 tggaactcaa ttgctcattg gattttgact cttagtgcta tgtctgaggt ttctggtctt 4141 tcccctgagg ttgtgcaagc caactcctgt ttctcattct atggggatga tgagatagtc 4201 agcacagata taaatctgga cccagaaaaa ctcaccagga aactgaggga atatggcctc 4261 gtcccaacaa ggccagacaa aactgagggc ccacttgtga ttactcagga tttgaatggt 4321 ctcacatttc tgaggcggac catagtgcgg gaccccgcag gctggtttgg aaaactggac 4381 cgtgattcca ttctaaggca gttatactgg accagaggac ccaatcatga gaaccccttt 4441 gaaagcatga ttcctcactc ccagagagca acccagttaa tggcccttct tggggaagcc 4501 tcgttgcatg gtccccagtt ttacaagaag gtgagtaaaa tggtcatcaa tgagatcaag 4561 agtggtggtc tggagttcta cgtgcccaga caggaggcca tgtttagatg gatgagattt 4621 tcagacctca gcacgtggga gggcgatcgc aatctggctc ccgagaatgt gaatgaagat 4681 ggcgtcgaat gacgcagctc catcgaatga tggcgcggct ggcctcgtac cagagatcaa 4741 ccatgaggtc atggccatag agcctgttgc aggagcctct ttagcagctc ctgtcgtagg 4801 acaacttaat ataattgatc cctggattag aaataatttt gtgcaagccc ctgctggaga 4861 attcactgtt tcgcctagga atgctccagg tgaattttta ttagatctag agttaggtcc 4921 agaattgaat ccctatcttg ctcaccttgc acgcatgtat aatgggcatg caggtggtat 4981 ggaggtgcag atagtgcttg ctgggaatgc gttcacagcg ggcaaaatac tgtttgcagt 5041 cataccgcct ggattcccct atgaaaattt gtcacctgca caattgacca tgtgcccaca 5101 tgtagtagtg gatgtgaggc agcttgaacc aatcttgctg cccatgccag acatccgcaa 5161 tacattcttc cattacaacc agagcaatgg gccaaaactt agattagtag ctatgcttta 5221 cacaccccta agggctaaca atgctggtga tgatgtcttc acggtttcct gcagggtttt 5281 gactcgccca tcaccagatt ttgaattcaa ttttcttgtc cccccatctg ttgaatctaa 5341 gactaaagct ttcacccttc caattcttaa gatatctgag atgacaaatt caagatttcc 5401 cataccagtt gatcagatgt acactagtag gaatgaaaat atagttgttc aaccacaaaa 5461 tggcagggtg acacttgatg gagagctaca gggcacaacc acactccaac cggtgtccat 5521 ttgtggcttc cgagggacgc tgcagaccag gctggcagat caaccaaatt acacatacca 5581 agtgcacctt gagaatttgg acggctcacc cgtcgacccg acagatgaag ttccagcccc 5641 cctggggaca ccagattttc aggcccagct atttggagtt gtcagccaaa ggagtagtga 5701 taatgccacc agggcacatg aggctagggt caacaccaac gatcccacct tcgcgcccca 5761 gatcgcccag gtgcgtttca aatcaccatc ccacgacttc tttgacaatg aacccatcaa 5821 attcacacca gttggaatca gtgttgatag cgaaaacagc tacaaccaat ggctcctacc 5881 caggtatggt ggacacctga caaacaacac ccacctggcc ccctctgtgt ccccaatgtt 5941 ccccggcgag cagattctct tcttccgctc gttcatgcca ggtgccagtg gtcacactga 6001 tggtgctatt gactgccttt taccacaaga gtgggttgcc cacttctatc aggaggccgc 6061 aactgcgcaa acagatgtgg ctctgattag atttgtgaac cccgacacag gcagagtgct 6121 atttgaaggg aagttacaca agcagggttt tataaccatc tccaacagcg gggaccaccc 6181 cattgttatg cctgctaatg gatacttcag gtttgaggca tgggtcaacc aattttactc 6241 tctcgccccc gtgggaactg gaagtgggcg cagaagagtt caataatggc tggagctttt 6301 cttgctggtc tggctggtga tgtggtgacc tctggcatcg ggtcgctcat caatgcaggt 6361 gctaatgcag taaaccagaa ggttgaatat gacttcaata ggcaactcca agaagcttct 6421 tttaaacatg acaaggagat gttgaatgct caaattaatg ccacaaccaa attgcaaagg 6481 gacatgattg ccattaagca tggggttttg accgctggcg gcttttcccc cactgatgct 6541 gcaaggggtt ccatcaatgc tccaaccacc aaaattcttg actggaacgg atctaggtac 6601 tgggcaccag gatcaatgag aacaacagcg tactctggca attttatatc gcagggagtt 6661 aagcagccca cacccattgt tagatctgtg aaacctcaag tacagcaatc tcctgcccct 6721 tcttctgttt attctgtagg ttctgttagg tcacaatcaa cacaatcaac tcagttaaca 6781 gggtcaggga ctgtatcaag ggcacccacc ccctcaacaa tcacaacact gtccagaaca 6841 agtgagtggg tgaggagcca gaatgatagg ttgagcccct ttatgggagg cgcactccag 6901 acagctttca tcacgccccc atcgagtaag gcttcatcct catcaggaac agtctcaacc 6961 gttcctagag aaattttgga ctcctggact cctgcattta acacgcgcag gcagccgctc 7021 ttcgctcaca tacgtaagcg aggggagtca cgggtttagt gaaa //