Typing tool
|
Complete norovirus genomes
MN938460 | GI.4 | ||
---|---|---|---|
GI.P4 |
ORF1: 1..5358 ORF2: 5342..6976 ORF3: 6976..7602LOCUS MN938460 7602 bp RNA linear VRL 20-JAN-2020 DEFINITION Norovirus GI isolate 33 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MN938460 VERSION MN938460.1 KEYWORDS . SOURCE Norovirus GI ORGANISM Norovirus GI Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7602) AUTHORS Huang,Z. and Ou,X. TITLE Full-genome of GII.P21-GII.13 recombinant norovirus in an outbreak in Changsha city, China JOURNAL Unpublished REFERENCE 2 (bases 1 to 7602) AUTHORS Huang,Z. and Ou,X. TITLE Direct Submission JOURNAL Submitted (14-JAN-2020) Microbiological laboratory, Changsha Center for Disease Control and Prevention, beside the liuyang river bridge, No. 509, wanjiali second north Road, Changsha, Hunan 410000, China COMMENT ##Assembly-Data-START## Assembly Method :: SPAdes v. 3.13.0 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7602 /organism="Norovirus GI" /mol_type="genomic RNA" /isolate="33" /isolation_source="Anal swab" /host="Homo sapiens" /db_xref="taxon:122928" /country="China: Changsha" /collection_date="01-Apr-2019" /note="genotype: GI.P4-GI.4/33/Changsha/2019/CHN" gene 1..5358 /gene="ORF1" CDS 1..5358 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QHH18437.1" /translation="MMMASKDVVAATAASAENTSDNSESIKNRFFTRLKNLGSNNKPI KIENTHMALNLISRGPSPAPQERPPKDQRDKPPRNVTETQQAMGWIDPPVDQNLPTWE ELSQTEKQEILKNNSNWFDAGGLAPASIPSGYVKNTEQQPPDHQVKWSVNNGVDLGVD SLTTVPGPTWNLCPMPPIDQRNNGPAKEPLIGDMIEFYEGHIYHYAIYIGQGKTVGVH SPQAAYSIARITIHPIAAWWRVCYVPTPDQRLSYDQLKELENEPWPYAAVTNNCYEFC CRILNLQDTWLERRLVTSSRFNHPTQDWSRDTPDFQQDSKLEIVRDAVLAAINGLVSK PFKDLLNKLKPLNVLNLLSNCDWTFMGVVETIILLMELFGIFWNPPDVSSFIASLLPD MHLQGPEDLAKDLIPLVLGGVGLAIGFTKDKVTKVMKSAVEGLRAATQLGQYGLEIFA VLKKYFFGGDQTEKTLKDIETAVIDMEVISTTAVTQLVRDKQAARTYMNILDAEEEKA RKLSVRHADPHVVSTTNALISRISLARSALAKAQAEMTNRVKPVVIMMCGPPGIGKTK AAEYLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMSKIADDCNKLQA IADTAPLTLNCDRIEKKGLQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVYCTA PDVEQTRRTNPGDTGALKDCFKNDFSHLKMELAPQGGFDNQGNTPFGKGTMRPTTLNR LLIQAVALTMERQDEFQMQGQVYDFDADRVSAFTSLARANGLGLISMASLGKKLRGVD SVQGLKNALSGYTITPCSIKWQARVYDIESDGTNVHIKENTSAQTQRQQSIDTAALAL TRLKAARAAAYAACIQSAITTILQMAGSAIVINRAVKRMFGAHPSTIALEGPPREHRC RAHLAKAAGGGPIGHDDVIDKYGLCETEEEGTSEEMNVELPTATSEGKNKGKTKKGRG RRANYNAFSRRGLSDEEYEEYKKIREEKNGNYSIQEYLEDRQRYEEELAEVQAGGDGG IGETEMEIRHKIFYKSKKGRQNERRQLGLVTGSDIRKRKPIDWTPPKNDWADDNREVD YNEKLSFEAPPTLWSRVVRFGSGWGFWVSPTVFITTTHVIPSGVREFFGEPIESIAIH RAGEFTQFRFSRKVRPDLTGMVLEEGCPEGVVCSILIKRDSGELLPLAVRMGAIASMK IQGRLVHGQSGMLLTGANAKGMDLGTLPGDCGAPYVYKRNNDWVVCGVHAAATKSGNT VVCAVQAGEGETTLEGGDKGHYAGHEIIKHSKGPALSTKTKFWRSTPEPLPPGVYEPA YLGGRDPRVKGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSMLEQTMDTPT PWSFSDACQSLDKTTSSGHPYHKRKNDDWNGTSFIGELGEQAAHANNMYELGKSMKPL YTAALKDELVKPEKVYQKIKKRLLWGADLSTVIRAARAFGPFCDAIKPHVIKLPIKVG MNSIEDGPMIYAEHAKYKNHFDADYSAWDSTQNRQIMTESFAIMCRLTASPELASVVA KDLLAPSEMDVGDYIIRVKEGLPSGFPCTSQVNSINHWLITLCAMSEVTGLSPDVIQS QSYFSFYGDDEIVSTDIDFDPARLTQVLKEYGLRPTRPDKSEGPIILRRQVDGLVFLR RTISKDAAGFQGRLDRGSIERQLWWTRGPNHDDPSETLIPHPQRKVQLISLLGEASLH GEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDG V" mat_peptide 1..1188 /gene="ORF1" /product="p48" mat_peptide 1189..2277 /gene="ORF1" /product="NTPase" mat_peptide 2278..2880 /gene="ORF1" /product="p22" mat_peptide 2881..3288 /gene="ORF1" /product="VPg" mat_peptide 3289..3831 /gene="ORF1" /product="Pro" mat_peptide 3832..5355 /gene="ORF1" /product="RdRp" gene 5342..6976 /gene="ORF2" CDS 5342..6976 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QHH18438.1" /translation="MMMASKDATPSADGATGAGQLVPEVNTADPIPIDPVAGSSTALA TAGQVNLIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLQLGPHLNPFLSHLSQMYNG WVGNMRVRVVLAGNAFTAGKVIICCVPPGFQSRTLSIAQATLFPHVIADVRTLDPVEV PLEDVRNVLYHNNDTQPTMRLLCMLYTPLRTGGASGGTDSFVVAGRVLTCPGPDFNFL FLVPPTVEQKTRPFTVPNIPLKYLSNSRIPNPIEGMSLSPDQTQNVQFQNGRCTIDGQ PLGTTPVSVSQLCKFRGRITSGQKVLNLTELDGSPFMAFAAPAPAGFPDLGSCDWHIE MSKIPNSSTQNNPIVVNSVKPNSQQFVPHLSSITLDDNVSSGGDYIGTIQWTSPPSDS GGVNTNFWKIPDYGSSLAEASQLAPAVYPPGFNEVIVYFMASIPGPNQSGSPNLVPCL LPQEYITHFISEQAPIQGEAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNSSSTGPQQ LPLDGVFVFASWVSRFYQLKPVGTAGPARGRLGVRR" gene 6976..7602 /gene="ORF3" CDS 6976..7602 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QHH18439.1" /translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQAQRYQQDLTLQQN SFNHDKEMLGYQVEMSNKLLAKNLNTRYSLLQAGGLSPSDAARAVAGAPVTRLVDWGG VRVAAPQSSATTLRSGNFMAVPLPAQPKQKPLASEGYSNPAYDPMQRTASWVQSQNSS RTWSPYHRQALQTVWVTPPGSTSSSSVSTAPRGYFNTDRLPLFANLRR" ORIGIN 1 atgatgatgg cgtcgaaaga cgtcgttgca gctactgctg ctagtgctga aaacactagt 61 gacaatagtg aatctataaa gaaccgtttc ttcacaagat tgaagaattt aggttctaac 121 aataaaccta taaaaattga aaacacccat atggccctca acttgattag tagagggcca 181 tctccagccc cacaagaaag gccccccaag gatcagaggg ataaaccccc aaggaatgtg 241 actgaaactc aacaggcaat ggggtggatt gacccccccg tggatcagaa cctaccaacc 301 tgggaggaac tgagccaaac agaaaaacaa gagatactca agaacaattc aaactggttt 361 gatgctggtg ggttggcacc agctagtatc ccttctggtt atgtgaaaaa cacagagcaa 421 caaccccctg accaccaggt caaatggagt gtaaacaacg gggttgacct gggggtggac 481 agtctaacta ctgtgccagg tccaacatgg aacttgtgcc ccatgccacc aattgaccaa 541 cgaaacaatg gccctgcaaa agagccactt attggtgata tgatagaatt ctatgaagga 601 cacatttacc attatgcaat atatattggc caaggaaaaa ctgttggggt ccactcacct 661 caagcggctt attcaatagc cagaataacc atacacccca ttgctgcttg gtggagggtt 721 tgttatgtgc caacacctga tcagagatta agttatgacc aactcaaaga gcttgagaat 781 gagccatggc catatgctgc agtcaccaat aattgctatg agttctgctg cagaatcctc 841 aatctgcagg atacttggtt ggagcgccgt ctagtcacgt ccagtcgttt taaccatcca 901 acacaagact ggtctaggga cacgcctgac tttcaacaag atagtaaact ggaaatagtc 961 agggatgctg tgcttgctgc aattaatggc ttagtatcaa aaccctttaa agatctccta 1021 aataaactta agccactcaa tgtgcttaac ctactctcca actgcgattg gacatttatg 1081 ggagtagtgg agacaataat attacttatg gaactgtttg ggatcttctg gaacccccct 1141 gatgtgtcca gcttcatagc ctcactacta cctgacatgc acctgcaagg accagaagat 1201 ctggctaaag atttgatacc actggtgttg gggggtgtag ggcttgcaat tggatttacc 1261 aaggacaagg ttacaaaggt catgaagagc gctgttgaag gacttagggc agccacacaa 1321 ttgggccagt atggtctaga gatatttgca gtcttaaaga aatacttctt tggcggagac 1381 caaacagaga agactttaaa ggacattgag acagccgtaa ttgacatgga ggtcatttca 1441 acaactgctg tcactcaatt agtcagggac aagcaggctg cccgaaccta catgaatatt 1501 ttggatgccg aggaagaaaa ggcaagaaag ctttcagtca gacatgcaga cccccatgtt 1561 gtgtccacga ctaatgccct gatctcacgc atttctttgg ctcgctctgc acttgctaag 1621 gcacaagctg agatgactaa cagagttaaa ccagtggtaa taatgatgtg tggcccccca 1681 ggcataggca agacaaaggc agctgagtat cttgctaaga gattggctaa tgagatacgg 1741 cctggaggaa aagtgggtct cgttccaagg gaggctgtgg atcactggga tggatatcat 1801 ggtgaagagg ttatgttatg ggatgattat ggtatgtcaa aaatagccga tgactgtaat 1861 aagttgcagg ccatagccga cacagctcca ctcaccttga attgtgaccg gattgagaag 1921 aaagggttac aattcgtttc tgatgccata gtgataacaa caaatgcccc aggtccagcc 1981 cctgttgact ttgtcaatct tggcccagtg tgccggcgtg tagacttcct ggtttattgc 2041 accgcacctg acgttgaaca aacacgtcgc accaaccctg gagacactgg agcccttaag 2101 gattgtttca aaaatgactt ctcccatcta aaaatggagt tggccccaca gggcgggttt 2161 gacaatcaag ggaacacccc atttggcaaa gggaccatgc gacctaccac gttaaaccgt 2221 cttctcatac aagctgtggc gctaaccatg gagcgtcagg atgaattcca gatgcagggt 2281 caagtgtatg attttgacgc tgacagggta tccgctttca ccagtctagc gagagccaat 2341 ggtctgggtc tcattagcat ggcctctctg ggaaagaaat tgaggggtgt ggactcagtc 2401 caaggcctca agaatgcatt atcaggctac accataaccc cttgtagcat aaaatggcaa 2461 gccagagtgt atgatattga atcggatggc actaatgtac acataaagga aaacacttca 2521 gcccagacac aacgccagca gtcaattgac acagcagctc tagcactcac tagacttaag 2581 gcagcacggg cagcagcgta tgcagcttgc atacaaagtg caataacaac tatcttgcag 2641 atggctgggt cagccatcgt tataaatcgt gctgtcaaaa ggatgtttgg ggcacaccca 2701 agcaccatag cccttgaagg accaccaaga gaacaccggt gtagagctca cctggccaaa 2761 gctgcaggtg gcggaccaat aggtcatgat gatgtcattg ataagtatgg tctatgtgag 2821 actgaagaag agggcactag tgaggagatg aatgtggagc ttcccaccgc tacttctgag 2881 ggtaaaaata aaggtaaaac caagaaagga agaggcagaa gagccaatta taatgctttt 2941 tcaaggcgag gtctgagtga tgaagaatac gaggagtata agaagatcag ggaagaaaag 3001 aatggtaact acagtattca ggaatacctt gaagacagac aacgctatga ggaagaactc 3061 gcagaagtgc aagctggtgg tgatggaggc attggtgaga cagagatgga gatccggcac 3121 aagatcttct ataaatccaa aaagggccgc caaaatgaac gccgccagct aggattggtc 3181 actggtagtg acattagaaa gagaaaacca attgattgga ccccccccaa gaatgattgg 3241 gcagatgaca acagggaagt ggattataat gaaaaactca gttttgaagc cccaccaacc 3301 ctctggagcc gggttgtgag atttggctct gggtggggct tttgggtgag cccgactgtt 3361 tttatcacca ctacccacgt tataccatct ggagtgcgtg aattctttgg agaacccatc 3421 gagtccattg caatccaccg tgctggtgag tttacacaat tcagattttc acgcaaagtc 3481 cgcccagatt tgactggaat ggtgttggag gaaggctgcc ctgagggtgt tgtgtgttcc 3541 atcctcatta aacgtgactc tggtgagctg ctaccccttg ctgtccgaat gggcgctata 3601 gcgtccatga agatccaagg gaggttagtg catggtcaat ctgggatgct gcttactggg 3661 gccaacgcca aggggatgga cttgggcacc ctaccaggtg attgtggtgc cccttatgtg 3721 tacaaaagga acaatgattg ggtggtttgt ggtgtgcatg cagctgccac gaaatcaggc 3781 aacactgtag tgtgtgctgt ccaggctggg gagggtgaaa ccaccttaga gggaggtgat 3841 aaaggtcact atgctggtca tgagataatc aagcacagca agggcccagc tttatcaacc 3901 aagaccaagt tctggaggtc aacccctgaa ccactgccgc caggtgttta tgaaccagca 3961 taccttgggg gccgtgaccc aagggtaaaa ggtggacctt ccttacaaca agtcctgcgt 4021 gaccagctga aaccgtttgc tgagccacga ggtcgaatgc cagaacctgg cctacttgag 4081 gcagccgtcg aaactgtcac atccatgctt gaacaaacaa tggacacacc aaccccctgg 4141 tctttctctg atgcatgcca gtcactcgac aaaaccacaa gttcggggca cccataccat 4201 aaaaggaaaa atgatgattg gaatggaact tcattcattg gggagcttgg agaacaggcg 4261 gcacatgcta acaacatgta tgagttaggc aagtccatga aaccacttta tactgcagcc 4321 ctaaaagatg agctagtcaa gcctgagaaa gtctatcaaa agatcaagaa gaggctcctc 4381 tggggtgctg atctctcaac agttataaga gctgccagag cctttggacc attttgtgat 4441 gccataaagc ctcatgtcat taaactcccc atcaaagttg gtatgaactc catagaagat 4501 ggcccaatga tctatgcaga acatgcaaag tataagaatc attttgatgc agactattcg 4561 gcctgggatt ctacacaaaa tagacagatc atgactgagt cctttgcaat catgtgtcgc 4621 cttacggcgt cacctgaatt ggcctctgtt gtagctaaag atttacttgc accctcagaa 4681 atggatgttg gtgattacat catccgtgtg aaggaaggct tgccttcagg attcccttgc 4741 acgtcacagg tgaacagtat aaatcattgg ttgatcacat tgtgtgctat gtctgaagtc 4801 acaggcttat cacccgatgt catacaatcc cagtcttact tttccttcta tggtgatgat 4861 gaaatagtct caacagatat tgattttgac cccgcccgcc tcacacaagt gcttaaagaa 4921 tacggattga gacccacccg accagacaag tctgaaggac ctattatact tagaagacag 4981 gtggatggcc ttgttttctt aaggaggaca atctcaaaag atgctgcggg ctttcagggg 5041 aggctggata ggggctcaat tgaaaggcag ctctggtgga ctcgaggtcc taaccatgat 5101 gaccccagtg agactctaat cccacacccc cagaggaaag ttcaacttat atcccttctt 5161 ggtgaggctt ccctccatgg tgagaaattt tacaggaaaa tctccagtaa agtcatacag 5221 gagataaaga ctggtggttt ggaaatgtat gtgccaggct ggcaggccat gttccgctgg 5281 atgcgcttcc atgacctcgg attgtggaca ggagatcgca atctcctacc cgaattcgta 5341 aatgatgatg gcgtctaagg acgctacacc aagcgcagat ggcgccactg gcgccggcca 5401 gctggtaccg gaggttaata cagctgaccc tatacccatt gaccctgtgg ctggctcctc 5461 tacagcactt gccactgcag gccaagttaa tttgattgat ccctggataa tcaataattt 5521 tgtgcaagcc ccccagggtg aattcacaat atccccaaac aatacccccg gtgatgtgct 5581 ttttgatttg cagttaggac ctcatttaaa ccctttcctc tcccatctct ctcaaatgta 5641 taatggctgg gtgggtaaca tgcgagtgcg tgttgtcttg gctggtaatg cttttacggc 5701 tgggaaggtt ataatttgtt gtgtcccccc tggctttcaa tctcgcactc tttccatagc 5761 tcaggctact ttattccccc acgttattgc tgatgttagg acccttgacc ctgtagaagt 5821 gcctcttgaa gatgtcagga acgtgttgta tcataacaat gacacccaac ccaccatgcg 5881 cctcctttgc atgctgtaca cccctctccg caccggggga gcgtctggtg ggactgattc 5941 tttcgtggta gctgggcgtg tgcttacttg cccaggccct gactttaact ttttattctt 6001 ggtccctccc acagtcgagc aaaagactcg ccctttcact gtgcccaata tccctttgaa 6061 gtatctgtct aactccagaa tcccaaaccc cattgaaggt atgtcattgt cacctgacca 6121 gactcaaaat gtccaattcc aaaatggcag gtgcacaatt gacggtcagc ccctcgggac 6181 tacacctgtc tcggttagcc agttatgtaa gttcaggggt aggattacat ctggacaaaa 6241 ggtgctcaat ttgacagagt tggatggttc accttttatg gcctttgctg cccctgcccc 6301 tgcgggcttc ccagaccttg ggtcctgtga ttggcatatt gagatgagta aaatcccaaa 6361 ttctagcacc cagaataacc caatagtagt caattctgtc aagcccaata gtcaacagtt 6421 tgtccctcac ttgtcaagta tcacccttga tgataatgtc tctagtgggg gtgattatat 6481 tggtactata caatggacct ctcctccttc tgattctggc ggtgtcaata caaacttttg 6541 gaaaattcct gactatgggt ctagtttggc tgaagcttca cagttggccc ccgctgtcta 6601 tccacctggt ttcaatgaag tgattgtgta tttcatggca tctatacctg gccccaatca 6661 atctgggtcc cctaacttgg tgccatgcct gctcccccag gaatatataa cacatttcat 6721 tagtgagcag gcccccattc agggtgaggc tgccttactc cattatgtgg acccagatac 6781 caatcgtaat ttgggtgagt ttaaattgta tcctggtggt tatttaacct gtgttcctaa 6841 tagttctagt actggacctc aacaacttcc tcttgatggt gtttttgtct ttgcttcttg 6901 ggtctctaga ttttatcaat taaagcctgt gggaacagcc ggaccggcta gaggtaggct 6961 tggtgtccgt agataatggc ccaagccatt ataggagcca ttgccgcctc tgcagccggc 7021 agcgccctgg gtgctggcat ccaggccggt gctgaagctg cattacaggc tcagagatat 7081 caacaagatt tgactttgca gcaaaattct tttaatcatg ataaagaaat gttaggctat 7141 caagtggaaa tgtccaataa gttgttagct aagaatctta atacccgcta ttctcttctc 7201 caggcgggtg gcctctctcc ctctgatgcg gctagggctg tggccggggc ccctgtcact 7261 aggctggtcg actggggtgg agtgcgtgtt gcagcaccac aatcatctgc cactacattg 7321 agatctggca atttcatggc agtaccgctc ccagctcagc caaagcagaa gccccttgcc 7381 agtgagggtt attccaaccc cgcctatgac cctatgcagc gtacagcttc ttgggttcaa 7441 tctcaaaatt ccagtcggac ttggtctcct taccataggc aggccctcca gactgtatgg 7501 gtgacccccc ctggctccac ctcttcttct tctgtttcta ccgcccctcg ggggtacttt 7561 aatacagata ggttgcctct gttcgcaaac ttgaggcgtt aa //